scholarly journals Gallid Alphaherpesvirus 2 in the Egyptian Turkeys: Molecular Characterization and Establishment of a Universal System for Phylogenetic Classification

Intervirology ◽  
2021 ◽  
pp. 1-9
Author(s):  
Mahmoud Bayoumi ◽  
Mohamed El-Saied ◽  
Basem Ahmed ◽  
Magdy El-Mahdy ◽  
Haitham Amer
Keyword(s):  
Sequence Analysis ◽  
Histopathological Examination ◽  
Integrated System ◽  
Internal Organs ◽  
Universal System ◽  
Diffuse Infiltration ◽  
Phylogenetic Classification ◽  
Viral Virulence ◽  
Meq Gene

<b><i>Introduction:</i></b> Gallid alphaherpesvirus 2 (GaHV-2) is a highly contagious oncogenic virus that causes Marek’s disease in chickens and occasionally in turkeys. Among 100 genes identified in GaHV-2 genome, the Meq gene appears to involve viral virulence, oncogenicity, and genetic diversity. Despite the use of Meq gene sequences in phylogenetic classification of GaHV-2 strains circulating in many countries worldwide, no integrated system exists yet. <b><i>Methods:</i></b> Turkeys from 2 commercial Egyptian farms were presented with signs of dullness, dehydration, and emaciation. Samples prepared from the internal organs were examined by histopathology and immunohistochemistry. Pools of the internal organs were analyzed by PCR for identification of GaHV-2, avian leucosis virus, and reticuloendotheliosis virus. The Meq gene of an Egyptian strain was sequenced and analyzed in comparison to 40 reference strains for generation of a universal system for phylogenetic classification of GaHV-2 strains. <b><i>Results:</i></b> Gross and histopathological examination revealed grayish-white soft masses in the internal organs characterized by diffuse infiltration of pleomorphic neoplastic cells. All lymphoma cells were identified as T-lymphocytes of CD3+ phenotype. Samples of both farms were only positive for GaHV-2 by PCR. Sequence analysis of the Meq gene has classified the current turkey strain as related to the Egyptian strains identified in chicken in 2012. A universal phylogenetic system for classification of GaHV-2 strains into 4 clusters was proposed. The vaccine strains were all grouped in cluster 2, and most of the classical American strains belonged to cluster 4. Cluster 1 was further divided into 3 subclusters (1.1–1.3). <b><i>Conclusion:</i></b> GaHV-2 was identified in turkeys for the first time in Africa and the Middle East. Sequence analysis of the Meq gene of the Egyptian strain along with a wide array of the global strains has enabled the construction of a novel phylogenetic classification system.

scholarly journals Extensive Phylogenetic Analysis of Piscine Orthoreovirus Genomic Sequences Shows the Robustness of Subgenotype Classification

Pathogens ◽  
2021 ◽  
Vol 10 (1) ◽  
pp. 41
Author(s):  
Marcos Godoy ◽  
Daniel A. Medina ◽  
Rudy Suarez ◽  
Sandro Valenzuela ◽  
Jaime Romero ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Genetic Variation ◽  
Sequence Analysis ◽  
Molecular Phylogeny ◽  
Phylogenetic Trees ◽  
Genomic Segment ◽  
Double Stranded Rna ◽  
The Family ◽  
Original Classification

Piscine orthoreovirus (PRV) belongs to the family Reoviridae and has been described mainly in association with salmonid infections. The genome of PRV consists of about 23,600 bp, with 10 segments of double-stranded RNA, classified as small (S1 to S4), medium (M1, M2 and M3) and large (L1, L2 and L3); these range approximately from 1000 bp (segment S4) to 4000 bp (segment L1). How the genetic variation among PRV strains affects the virulence for salmonids is still poorly understood. The aim of this study was to describe the molecular phylogeny of PRV based on an extensive sequence analysis of the S1 and M2 segments of PRV available in the GenBank database to date (May 2020). The analysis was extended to include new PRV sequences for S1 and M2 segments. In addition, subgenotype classifications were assigned to previously published unclassified sequences. It was concluded that the phylogenetic trees are consistent with the original classification using the PRV genomic segment S1, which differentiates PRV into two major genotypes, I and II, and each of these into two subgenotypes, designated as Ia and Ib, and IIa and IIb, respectively. Moreover, some clusters of country- and host-specific PRV subgenotypes were observed in the subset of sequences used. This work strengthens the subgenotype classification of PRV based on the S1 segment and can be used to enhance research on the virulence of PRV.

Isolation and phylogenetic classification of culturable psychrophilic prokaryotes from the Collins glacier in the Antarctica

2011 ◽  
Vol 56 (3) ◽  
pp. 209-214 ◽  
Author(s):  
S. A. García-Echauri ◽  
M. Gidekel ◽  
A. Gutiérrez-Moraga ◽  
L. Santos ◽  
A. De León-Rodríguez
Keyword(s):  
Phylogenetic Classification

A radiopathological classification of dural tail sign of meningiomas

2012 ◽  
Vol 117 (4) ◽  
pp. 645-653 ◽  
Author(s):  
Song-tao Qi ◽  
Yi Liu ◽  
Jun Pan ◽  
Silky Chotai ◽  
Lu-xiong Fang
Keyword(s):  
Tumor Cells ◽  
Histopathological Examination ◽  
Who Grade ◽  
Simpson Grade ◽  
Mri Studies ◽  
Dural Tail Sign ◽  
Significant Difference ◽  
Different Types ◽  
Dural Tail

Object The completeness of meningioma resection depends on the resection of dura mater invaded by the tumor. The pathological changes of the dura around the tumor can be interpreted by evaluating the dural tail sign (DTS) on MRI studies. The goal of this study was to clarify the pathological characteristics of the DTSs, propose a classification based on the histopathological and radiological correlation, and identify the invasive range of tumor cells in different types of DTS. Methods The authors retrospectively reviewed 179 patients with convexity meningiomas who underwent Simpson Grade I resection. All patients underwent an enhanced MRI examination preoperatively. The convexity meningiomas were dichotomized into various subtypes in accordance with the 2007 WHO classification of tumors of the CNS, and the DTS was identified based on the Goldsher criteria. The range of resection of the involved dura was 3 cm from the base of the tumor, which corresponded with the length of DTS on MRI studies. Histopathological examination of dura at 0.5, 1.0, 1.5, 2.0, 2.5, and 3.0 cm from the base of the tumor was conducted, and the findings were correlated with the preoperative MRI appearance of the DTS. Results A total of 154 (86%) of 179 convexity meningiomas were classified into WHO Grade I subtype, including transitional (44 [28.6%] of 154), meningothelial (36 [23.4%] of 154), fibrous (23 [14.9%] of 154), psammomatous (22 [14.3%] of 154), secretory (10 [6.5%] of 154), and angiomatous (19 [12.3%] of 154). The other 25 (14%) were non–Grade I (WHO) tumors, including atypical (12 [48%] of 25), anaplastic (5 [20%] of 25), and papillary (8 [32%] of 25). The DTS was classified into 5 types: smooth (16 [8.9%] of 179), nodular (36 [20.1%] of 179), mixed (57 [31.8%] of 179), symmetrical multipolar (15 [8.4%] of 179), and asymmetrical multipolar (55 [30.7%] of 179). There was a significant difference in distribution of DTS type between Grade I and non–Grade I tumors (p = 0.004), whereas the difference was not significant among Grade I tumors (0.841) or among non–Grade I tumors (p = 0.818). All smooth-type DTSs were encountered in Grade I tumors, and the mixed DTS (52 [33.8%] of 154) was the most common type in these tumors. Nodular-type DTS was more commonly seen in non–Grade I tumors (12 [48%] of 25). Tumor invasion was found in 88.3% (158 of 179) of convexity meningiomas, of which the range of invasion in 82.3% (130 of 158) was within 2 cm and that in 94.9% (150 of 158) was within 2.5 cm. The incidence of invasion and the range invaded by tumor cells varied in different types of DTS, and differences were statistically significant (p < 0.001). Conclusions Nodular-type DTS on MRI studies might be associated with non–Grade I tumors. The range of dural resection for convexity meningiomas should be 2.5 cm from the tumor base, and if this extent of resection is not feasible, the type of DTS should be considered. However, for skull base meningiomas, in which mostly Simpson Grade II resection is achieved, the use of this classification should be further validated. The classification of DTS enables the surgeon to predict preoperatively and then to achieve the optimal range of dural resection that might significantly reduce the recurrence rate of meningiomas.

scholarly journals Phylogenetic classification of bony fishes

2017 ◽  
Vol 17 (1) ◽  
Author(s):  
Ricardo Betancur-R ◽  
Edward O. Wiley ◽  
Gloria Arratia ◽  
Arturo Acero ◽  
Nicolas Bailly ◽  
...  
Keyword(s):  
Phylogenetic Classification ◽  
Bony Fishes

Classification of diseases of the gastrointestinal tract in the practice of a family doctor

2021 ◽  
pp. 8-13
Author(s):  
Aleksey Borisovich Petrukhin
Keyword(s):  
Gastrointestinal Tract ◽  
Digestive System ◽  
Family Doctor ◽  
The Body ◽  
Internal Organs ◽  
Important Place ◽  
High Prevalence ◽  
Classification Of Diseases ◽  
Diagnosis Of Diseases

Gastroenterology belongs to one of the leading branches of therapy. In the structure of diseases of the internal organs, diseases of the digestive system occupy a particularly important place due to their high prevalence, which increases with age. As a rule, these diseases have a chronic, progressive, recurrent course, which ultimately leads to severe disorders of the activity of many organs and systems of the body. The article presents the basic requirements for the formation of a clinical diagnosis of diseases of the gastrointestinal tract, which are most common in the practice of a family doctor.

Adenomyosis – its possible effect on endometrial function and receptivity

2021 ◽  
Vol 86 (3) ◽  
pp. 205-209
Author(s):  
Karel Crha ◽  
◽  
Michal Ješeta ◽  
Radovan Pilka ◽  
Pavel Ventruba ◽  
...  
Keyword(s):  
Epithelial Mesenchymal Transition ◽  
Current Knowledge ◽  
Histopathological Examination ◽  
Transvaginal Ultrasound ◽  
Embryo Implantation ◽  
Diagnostic Methods ◽  
Mesenchymal Transition ◽  
New Information

Summary Objective: There have been many studies on adenomyosis, which can impair the quality of life of a woman. There are various kinds of opinions on the pathogenesis, diagnostics and treatment of adenomyosis. The goal of this article is to present the current knowledge of adenomyosis and its impact on the endometrial function and receptivity. Methods: PubMed/Medline, Web of Sciences and Scopus were searched for the articles in English indexed until February 2021 with terms of: adenomyosis, endometrial receptivity, and infertility. Results: Recent studies on angiogenesis and epithelial-mesenchymal transition in the endometrium bring new information on the ethiology and pathogenesis of adenomyosis. In clinical practice, the main diagnostic methods of adenomyosis include transvaginal ultrasound, magnetic resonance imaging or hysteroscopy, although the definitive confirmation is set by histopathological examination. The rules of #Enzian classification of endometriosis should be applied for the classification of adenomyosis. The treatment of adenomyosis should consider individual clinical presentation and reproductive plans of a patient and should be performed in centers for the treatment of endometriosis. Conclusion: Adenomyosis affects endometrial vascularisation and epithelial-mesenchymal transition/mesenchymal-epithelial transition; thus, it can be the cause of irregular uterine bleeding or embryo implantation failure. The research and analysis of endometrial proteome could lead to the new ways of adenomyosis treatment.

scholarly journals A higher-level phylogenetic classification of the Fungi

2007 ◽  
Vol 111 (5) ◽  
pp. 509-547 ◽  
Author(s):  
David S. Hibbett ◽  
Manfred Binder ◽  
Joseph F. Bischoff ◽  
Meredith Blackwell ◽  
Paul F. Cannon ◽  
...  
Keyword(s):  
Phylogenetic Classification

scholarly journals Sequence Analysis and Classification of Apparent Recombinant Begomoviruses Infecting Tomato in the Nile and Mediterranean Basins

2005 ◽  
Vol 95 (5) ◽  
pp. 549-555 ◽  
Author(s):  
C. M. Fauquet ◽  
S. Sawyer ◽  
A. M. Idris ◽  
J. K. Brown
Keyword(s):  
Sequence Analysis ◽  
Phylogenetic Relationships ◽  
Tomato Yellow Leaf ◽  
Viral Diseases ◽  
Yellow Leaf ◽  
Recombination Hotspots ◽  
Molecular Biodiversity ◽  
Leaf Curl Virus ◽  
Leaf Curl

Numerous whitefly-transmitted viral diseases of tomato have emerged in countries around the Nile and Mediterranean Basins the last 20 years. These diseases are caused by monopartite geminiviruses (family Gemini viridae) belonging to the genus Begomovirus that probably resulted from numerous recombination events. The molecular biodiversity of these viruses was investigated to better appreciate the role and importance of recombination and to better clarify the phylogenetic relationships and classification of these viruses. The analysis partitioned the tomato-infecting begomoviruses from this region into two major clades, Tomato yellow leaf curl virus and Tomato yellow leaf curl Sardinia virus. Phylogenetic and pairwise analyses together with an evaluation for gene conversion were performed from which taxonomic classification and virus biodiversity conclusions were drawn. Six recombination hotspots and three homogeneous zones within the genome were identified among the tomatoinfecting isolates and species examined here, suggesting that the recombination events identified were not random occurrences.

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