Identity and microbial agents related to Dermacentor marginatus Sulzer (Acari: Ixodidae) with a new record of Rickettsia slovaca (Rickettsiales: Rickettsiaceae) in Iran

2021 ◽  
Vol 26 (2) ◽  
pp. 367-378
Author(s):  
Azadeh Nadim ◽  
Mohammad Khanjani ◽  
Asadollah Hosseini Chegeni ◽  
Zakkyeh Telmadarraiy
Keyword(s):  
16S Rrna ◽  
Anaplasma Ovis ◽  
Dermacentor Marginatus ◽  
Sequence Identity ◽  
Rickettsia Slovaca ◽  
Polymorphic Species ◽  
Northwestern Iran ◽  
Animal Hosts ◽  
East Azerbaijan ◽  
Microbial Agents

Dermacentor marginatus is a known vector of Rickettsia slovaca and Anaplasma ovis distributed across Eurasia. A total of 300 D. marginatus adult male ticks were collected, removed from sheep in East Azerbaijan province, northwestern Iran. The DNA of Rickettsia and Anaplasma were found in 10 (two pools) ticks by PCR amplifying parts of ompA and msp4 genes, respectively. Our study describes the first PCR detection of tick-borne pathogens, R. slovaca and A. ovis, show that they are spread in D. marginatus of Iran highlight their risk for human and animal hosts. Different patterns (ornamentation) were observed. The identity of different patterns in this study was evaluated with cytb, 16S rRNA and ITS2 genes. BLAST analysis of the cytb, 16S rRNA, ITS2 nucleotide sequence was showed 99%, 98%–100% and 98% sequence identity to sequences of D. marginatus, respectively. It was found that all different patterns of this study are in fact a polymorphic species, D. marginatus. These data increase our knowledge of tick and tick-borne microbial agents in Iran.

scholarly journals The mutL Gene as a Genome-Wide Taxonomic Marker for High Resolution Discrimination of Lactiplantibacillus plantarum and Its Closely Related Taxa

2021 ◽  
Vol 9 (8) ◽  
pp. 1570
Author(s):  
Chien-Hsun Huang ◽  
Chih-Chieh Chen ◽  
Yu-Chun Lin ◽  
Chia-Hsuan Chen ◽  
Ai-Yun Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Target Genes ◽  
Marker Genes ◽  
Rrna Gene ◽  
Accurate Identification ◽  
Discrimination Power ◽  
Sequence Identity ◽  
Genome Wide ◽  
A Genome

The current taxonomy of the Lactiplantibacillus plantarum group comprises of 17 closely related species that are indistinguishable from each other by using commonly used 16S rRNA gene sequencing. In this study, a whole-genome-based analysis was carried out for exploring the highly distinguished target genes whose interspecific sequence identity is significantly less than those of 16S rRNA or conventional housekeeping genes. In silico analyses of 774 core genes by the cano-wgMLST_BacCompare analytics platform indicated that csbB, morA, murI, mutL, ntpJ, rutB, trmK, ydaF, and yhhX genes were the most promising candidates. Subsequently, the mutL gene was selected, and the discrimination power was further evaluated using Sanger sequencing. Among the type strains, mutL exhibited a clearly superior sequence identity (61.6–85.6%; average: 66.6%) to the 16S rRNA gene (96.7–100%; average: 98.4%) and the conventional phylogenetic marker genes (e.g., dnaJ, dnaK, pheS, recA, and rpoA), respectively, which could be used to separat tested strains into various species clusters. Consequently, species-specific primers were developed for fast and accurate identification of L. pentosus, L. argentoratensis, L. plantarum, and L. paraplantarum. During this study, one strain (BCRC 06B0048, L. pentosus) exhibited not only relatively low mutL sequence identities (97.0%) but also a low digital DNA–DNA hybridization value (78.1%) with the type strain DSM 20314T, signifying that it exhibits potential for reclassification as a novel subspecies. Our data demonstrate that mutL can be a genome-wide target for identifying and classifying the L. plantarum group species and for differentiating novel taxa from known species.

scholarly journals Genome-based classification of Calidifontibacillus erzurumensis gen. nov., sp. nov., isolated from a hot spring in Turkey, with reclassification of Bacillus azotoformans as Calidifontibacillus azotoformans comb. nov. and Bacillus oryziterrae as Calidifontibacillus oryziterrae comb. nov.

2020 ◽  
Vol 70 (12) ◽  
pp. 6418-6427
Author(s):  
Ahmet Adiguzel ◽  
Hilal Ay ◽  
Mustafa Ozkan Baltaci ◽  
Sumeyya Akbulut ◽  
Seyda Albayrak ◽  
...  
Keyword(s):  
16S Rrna ◽  
Type Species ◽  
Hot Spring ◽  
Rrna Genes ◽  
Sequence Comparisons ◽  
Novel Genus ◽  
Content Type ◽  
Sequence Identity ◽  
Link Type ◽  
Bacillus Azotoformans

A novel Gram-stain-positive, rod-shaped, endospore-forming, motile, aerobic bacterium, designated as P2T, was isolated from a hot spring water sample collected from Ilica-Erzurum, Turkey. Phylogenetic analyses based on 16S rRNA gene sequence comparisons affiliated strain P2T with the genus Bacillus , and the strain showed the highest sequence identity to Bacillus azotoformans NBRC 15712T (96.7 %). However, the pairwise sequence comparisons of the 16S rRNA genes revealed that strain P2T shared only 94.7 % sequence identity with Bacillus subtilis subsp. subtilis NCIB 3610T, indicating that strain P2T might not be a member of the genus Bacillus . The digital DNA–DNA hybridization and average nucleotide identity values between strain P2T and B. azotoformans NBRC 15712T were 19.8 and 74.2 %, respectively. The cell-wall peptidoglycan of strain P2T contained meso-diaminopimelic acid. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, an aminophospholipid, five unidentified phospholipids and two unidentified lipids while the predominant isoprenoid quinone was MK-7. The major fatty acids were iso-C15 : 0 and iso-C16 : 0. The draft genome of strain P2T was composed of 82 contigs and found to be 3.5 Mb with 36.1 mol% G+C content. The results of phylogenomic and phenotypic analyses revealed that strain P2T represents a novel genus in the family Bacillaceae , for which the name Calidifontibacillus erzurumensis gen. nov., sp. nov. is proposed. The type strain of Calidifontibacillus erzurumensis is P2T (=CECT 9886T=DSM 107530T=NCCB 100675T). Based on the results of the present study, it is also suggested that Bacillus azotoformans and Bacillus oryziterrae should be transferred to this novel genus as Calidifontibacillus azotoformans comb. nov. and Calidifontibacillus oryziterrae comb. nov., respectively.

scholarly journals Tick species and tick-borne infections identified in population from a rural area of Spain

2005 ◽  
Vol 133 (5) ◽  
pp. 943-949 ◽  
Author(s):  
FRANCISCO JESÚS MERINO ◽  
TERESA NEBREDA ◽  
JOSE LUIS SERRANO ◽  
PEDRO FERNÁNDEZ-SOTO ◽  
ANTONIO ENCINAS ◽  
...  
Keyword(s):  
Health Care ◽  
Borrelia Burgdorferi ◽  
Anaplasma Phagocytophilum ◽  
Tick Species ◽  
Medical Advice ◽  
Borrelia Burgdorferi Sensu Lato ◽  
Dermacentor Marginatus ◽  
Rickettsia Slovaca ◽  
Rickettsia Massiliae ◽  
Rhipicephalus Bursa

To determine the tick species that bite humans in the province of Soria (Spain) and ascertain the tick-borne pathogens that threaten people's health in that province, 185 tick specimens were collected from 179 patients who sought medical advice at health-care centres. The ticks were identified, and their DNA examined by PCR for pathogens. Most ticks were collected in autumn and spring (59 and 57 respectively). Nine species of ticks were identified, the most frequent being Dermacentor marginatus (55·7%), Ixodes ricinus (12·4%) and Rhipicephalus bursa (11·9%). Ninety-seven females, 66 males, 21 nymphs and one larva were identified. Twenty-six ticks carried DNA from Rickettsia spp. (11 Rickettsia slovaca, 6 Rickettsia spp. RpA4/DnS14, 1 Rickettsia massiliae/Bar29, and 8 unidentified); two ticks carried DNA from Borrelia burgdorferi sensu lato and seven ticks harboured DNA from Anaplasma phagocytophilum.

scholarly journals Highly Specific Sewage-DerivedBacteroidesQuantitative PCR Assays Target Sewage-Polluted Waters

2019 ◽  
Vol 85 (6) ◽  
Author(s):  
Shuchen Feng ◽  
Sandra L. McLellan
Keyword(s):  
Population Structure ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Water Samples ◽  
Rrna Gene ◽  
Content Type ◽  
Hypervariable Regions ◽  
Animal Hosts ◽  
Pcr Assays ◽  
The 16S Rrna Gene

ABSTRACTThe identification of sewage contamination in water has primarily relied on the detection of human-associatedBacteroidesusing markers within the V2 region of the 16S rRNA gene. Despite the establishment of multiple assays that target the HF183 cluster (i.e.,Bacteroides dorei) and otherBacteroidesorganisms (e.g.,Bacteroides thetaiotaomicron), the potential for more human-associated markers in this genus has not been explored in depth. We examined theBacteroidespopulation structure in sewage and animal hosts across the V4V5 and V6 hypervariable regions. Using near-full-length cloned sequences, we identified the sequences in the V4V5 and V6 hypervariable regions that are linked to the HF183 marker in the V2 region and found these sequences were present in multiple animals. In addition, the V4V5 and V6 regions contained human fecal marker sequences for organisms that were independent of the HF183 cluster. The most abundantBacteroidesin untreated sewage was not human associated but pipe derived. Two TaqMan quantitative PCR (qPCR) assays targeting the V4V5 and V6 regions of this organism were developed. Validation studies using fecal samples from seven animal hosts (n = 76) and uncontaminated water samples (n = 30) demonstrated the high specificity of the assays for sewage. FreshwaterBacteroideswere also identified in uncontaminated water samples, demonstrating that measures of totalBacteroidesdo not reflect fecal pollution. A comparison of two previously described humanBacteroidesassays (HB and HF183/BacR287) in municipal wastewater influent and sewage-contaminated urban water samples revealed identical results, illustrating the assays target the same organism. The detection of sewage-derivedBacteroidesprovided an independent measure of sewage-impacted waters.IMPORTANCEBacteroidesare major members of the gut microbiota, and host-specific organisms within this genus have been used extensively to gain information on pollution sources. This study provides a broad view of the population structure ofBacteroideswithin sewage to contextualize the well-studied HF183 marker for a human-associatedBacteroides. The study also delineates host-specific sequence patterns across multiple hypervariable regions of the 16S rRNA gene to improve our ability to use sequence data to assess water quality. Here, we demonstrate that regions downstream of the HF183 marker are nonspecific but other potential human-associated markers are present. Furthermore, we show the most abundantBacteroidesin sewage is free living, rather than host associated, and specifically found in sewage. Quantitative PCR assays that target organisms specific to sewer pipes offer measures that are independent of the human microbiome for identifying sewage pollution in water.

Phenotypic variation of Thaumatomyia notate (Meigen, 1830) (Diptera; Chloropidae) in East Azerbaijan province - Iran

2014 ◽  
Vol 2 (22) ◽  
pp. 1
Author(s):  
Samad Khaghaninia ◽  
Yaser Gharajedaghi ◽  
Stepan Kubik
Keyword(s):  
Phenotypic Variation ◽  
Environmental Parameters ◽  
Morphological Characters ◽  
Seasonal Temperature ◽  
Temperature Elevation ◽  
Colour Variation ◽  
Diagnostic Characters ◽  
Northwestern Iran ◽  
East Azerbaijan ◽  
Dark Coloration

The phenotypic variation of Thaumatomyia notate (Meigen, 1830) (Chloropidae) collected from six different regions was studied in the East Azerbaijan province in northwestern Iran during 2009-2012. Eight populations of Thaumatomyia notata with different phenotypes were recognized. Environmental parameters such as temperature, elevation and habitat were examined. The results of this study show that colour variation in T. notata is caused mostly by seasonal temperature, dark coloration in April to light in July. In addition, variation in some morphological characters such as antenna, ocellar triangle, microchaetotaxy and size as well as diagnostic characters and photos of each variation are provided.

Prevalence of Rickettsia slovaca in Dermacentor marginatus Ticks Removed from Wild Boar (Sus scrofa) in Northeastern Spain

2006 ◽  
Vol 1078 (1) ◽  
pp. 324-327 ◽  
Author(s):  
A ORTUNO ◽  
M QUESADA ◽  
S LOPEZ ◽  
J MIRET ◽  
N CARDENOSA ◽  
...  
Keyword(s):  
Wild Boar ◽  
Sus Scrofa ◽  
Dermacentor Marginatus ◽  
Rickettsia Slovaca

Rickettsia slovaca in immature Dermacentor marginatus and tissues from Apodemus spp. in the northern Apennines, Italy

2013 ◽  
Vol 4 (6) ◽  
pp. 518-521 ◽  
Author(s):  
Elisa Martello ◽  
Marco Selmi ◽  
Charlotte Ragagli ◽  
Cecilia Ambrogi ◽  
Maria Cristina Stella ◽  
...  
Keyword(s):  
Northern Apennines ◽  
Dermacentor Marginatus ◽  
Rickettsia Slovaca

Methyloprofundus sedimenti gen. nov., sp. nov., an obligate methanotroph from ocean sediment belonging to the ‘deep sea-1’ clade of marine methanotrophs

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 251-259 ◽  
Author(s):  
Patricia L. Tavormina ◽  
Roland Hatzenpichler ◽  
Shawn McGlynn ◽  
Grayson Chadwick ◽  
Katherine S. Dawson ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Deep Sea ◽  
Gene Sequence ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Sequence Identity ◽  
Link Type

We report the isolation and growth characteristics of a gammaproteobacterial methane-oxidizing bacterium (Methylococcaceae strain WF1T, ‘whale fall 1’) that shares 98 % 16S rRNA gene sequence identity with uncultivated free-living methanotrophs and the methanotrophic endosymbionts of deep-sea mussels, ≤94.6 % 16S rRNA gene sequence identity with species of the genus Methylobacter and ≤93.6 % 16S rRNA gene sequence identity with species of the genera Methylomonas and Methylosarcina . Strain WF1T represents the first cultivar from the ‘deep sea-1’ clade of marine methanotrophs, which includes members that participate in methane oxidation in sediments and the water column in addition to mussel endosymbionts. Cells of strain WF1T were elongated cocci, approximately 1.5 µm in diameter, and occurred singly, in pairs and in clumps. The cell wall was Gram-negative, and stacked intracytoplasmic membranes and storage granules were evident. The genomic DNA G+C content of WF1T was 40.5 mol%, significantly lower than that of currently described cultivars, and the major fatty acids were 16 : 0, 16 : 1ω9c, 16 : 1ω9t, 16 : 1ω8c and 16 : 2ω9,14. Growth occurred in liquid media at an optimal temperature of 23 °C, and was dependent on the presence of methane or methanol. Atmospheric nitrogen could serve as the sole nitrogen source for WF1T, a capacity that had not been functionally demonstrated previously in members of Methylobacter . On the basis of its unique morphological, physiological and phylogenetic properties, this strain represents the type species within a new genus, and we propose the name Methyloprofundus sedimenti gen. nov., sp. nov. The type strain of Methyloprofundus sedimenti is WF1T ( = LMG 28393T = ATCC BAA-2619T).

Rickettsia slovaca and Rickettsia raoultii in Dermacentor marginatus Ticks Collected on Wild Boars in Tuscany, Italy

2009 ◽  
Vol 46 (6) ◽  
pp. 1490-1493 ◽  
Author(s):  
Marco Selmi ◽  
Elisa Martello ◽  
Luigi Bertolotti ◽  
Donal Bisanzio ◽  
Laura Tomassone
Keyword(s):  
Dermacentor Marginatus ◽  
Wild Boars ◽  
Rickettsia Raoultii ◽  
Rickettsia Slovaca

scholarly journals Mycobacterium arupense, Mycobacterium heraklionense, and a Newly Proposed Species, “Mycobacterium virginiense” sp. nov., but Not Mycobacterium nonchromogenicum, as Species of the Mycobacterium terrae Complex Causing Tenosynovitis and Osteomyelitis

2016 ◽  
Vol 54 (5) ◽  
pp. 1340-1351 ◽  
Author(s):  
Ravikiran Vasireddy ◽  
Sruthi Vasireddy ◽  
Barbara A. Brown-Elliott ◽  
Nancy L. Wengenack ◽  
Uzoamaka A. Eke ◽  
...  
Keyword(s):  
United States ◽  
16S Rrna ◽  
Species Identification ◽  
Type Strain ◽  
Molecular Taxonomy ◽  
The United States ◽  
Undescribed Species ◽  
Content Type ◽  
Sequence Identity ◽  
As Species

Mycobacterium terraecomplex has been recognized as a cause of tenosynovitis, withM. terraeandMycobacterium nonchromogenicumreported as the primary etiologic pathogens. The molecular taxonomy of theM. terraecomplex causing tenosynovitis has not been established despite approximately 50 previously reported cases. We evaluated 26 isolates of theM. terraecomplex associated with tenosynovitis or osteomyelitis recovered between 1984 and 2014 from 13 states, including 5 isolates reported in 1991 asM. nonchromogenicumby nonmolecular methods. The isolates belonged to three validated species, one new proposed species, and two novel related strains. The majority of isolates (20/26, or 77%) belonged to two recently described species:Mycobacterium arupense(10 isolates, or 38%) andMycobacterium heraklionense(10 isolates, or 38%). Three isolates (12%) had 100% sequence identity to each other by 16S rRNA and 99.3 to 100% identity byrpoBgene region V sequencing and represent a previously undescribed species within theM. terraecomplex. There were no isolates ofM. terraeorM. nonchromogenicum, including among the five isolates reported in 1991. The 26 isolates were susceptible to clarithromycin (100%), rifabutin (100%), ethambutol (92%), and sulfamethoxazole or trimethoprim-sulfamethoxazole (70%). The current study suggests thatM. arupense,M. heraklionense, and a newly proposed species (“M. virginiense” sp. nov.; proposed type strain MO-233 [DSM 100883, CIP 110918]) within theM. terraecomplex are the major causes of tenosynovitis and osteomyelitis in the United States, with little change over 20 years. Species identification within this complex requires sequencing methods.

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