scholarly journals Reverse-Zoonotic Transmission of SARS-CoV-2 Lineage Alpha (B.1.1.7) to Great Apes and Exotic Felids in a Zoo in the Czech Republic

2022 ◽  
Author(s):  
Alexander Nagy ◽  
Martina Stara ◽  
Roman Vodička ◽  
Lenka Černíková ◽  
Helena Jiřincová ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Czech Republic ◽  
Next Generation Sequencing ◽  
Clinical Signs ◽  
Great Apes ◽  
Zoonotic Transmission ◽  
The Czech Republic ◽  
Course Of Illness ◽  
Generation Sequencing ◽  
Felid Species

Abstract We report an outbreak of SARS-CoV-2 lineage alpha in gorillas and felid species in a zoo in Prague, Czech Republic. The course of illness and clinical signs are described, and the particular SARS-CoV-2 variants are characterized by next generation sequencing and phylogenetic analysis. The putative transmission routes are also inferred.

Autosomal dominant hypercholesterolemia in the czech republic – introduction of the next generation sequencing

2017 ◽  
Vol 263 ◽  
pp. e26 ◽  
Author(s):  
Lukas Tichy ◽  
Jana Pavlouskova ◽  
Kamila Reblova ◽  
Tomas Freiberger ◽  
Michal Vrablik ◽  
...  
Keyword(s):  
Czech Republic ◽  
Next Generation Sequencing ◽  
Autosomal Dominant ◽  
Next Generation ◽  
The Czech Republic ◽  
Generation Sequencing

scholarly journals Whole Chloroplast Genomes reveals the uniqueness of Bolivian native cacao (Theobroma cacao) from the northern part of Bolivia

2021 ◽  
Author(s):  
Marcia Gumiel ◽  
Oscar M Rollano-Penaloza ◽  
Carmelo Peralta-Rivero ◽  
Leslie Tejeda ◽  
Valeria D. Palma Encinas ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Next Generation Sequencing ◽  
Theobroma Cacao ◽  
Phylogenetic Trees ◽  
Plastid Genome ◽  
Next Generation ◽  
Center Of Origin ◽  
Chloroplast Genomes ◽  
Geographical Locations ◽  
Generation Sequencing

We report the complete chloroplast sequences of two varieties of Theobroma cacao collected in the Bolivian Amazonia using Next-Generation Sequencing. Comparisons made between these two chloroplast genomes and the Belizean reference plastid genome identified 19 and 22 nucleotide variants. The phylogenetic analysis reported three main T. cacao clades belonging to the Forastero, Criollo and Trinitario groups. The Bolivian Native Cacao varieties were located inside the Trinitario group forming their unique branch. The Bolivian Native Cacao branch reveals a possible new subpopulation different from the well-characterized T. cacao subpopulations. The phylogenetic trees showed that the relationships among the T. cacao varieties were consistent with their geographical locations placing the Cacao Center of Origin in Western Amazon. The data presented here will contribute to the usage of ultrabarcoding to distinguish different T. cacao varieties and to identify native cacaos from introduced cacaos. Thus helping in the conservation of local native varieties of T. cacao.

scholarly journals Cherry virus A infecting cherries and plums in the Czech Republic – Short communication

2013 ◽  
Vol 40 (No. 1) ◽  
pp. 37-39 ◽  
Author(s):  
D. Šafářová ◽  
M. Navrátil ◽  
F. Paprštein ◽  
T. Candresse ◽  
A. Marais
Keyword(s):  
Phylogenetic Analysis ◽  
Czech Republic ◽  
Sweet Cherry ◽  
Short Communication ◽  
Rt Pcr ◽  
Pcr Assay ◽  
The Czech Republic ◽  
Germplasm Collections ◽  
Sweet Cherries

 The presence of Cherry virus A (CVA) in the germplasm collections of sweet cherries and plums was studied. CVA was detected using the specific RT-PCR assay in six of eight sweet cherry and one of four plum cultivars. Specifity of amplicons and distant position of cherry and non-cherry isolates was verified by sequencing and phylogenetic analysis. Results indicate that the cherry landraces and cultivars could be infected by CVA more than it has been assumed.

scholarly journals The revised complete mitogenome sequence of the tree frog Polypedatesmegacephalus (Anura, Rhacophoridae) by next-generation sequencing and phylogenetic analysis

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e7415
Author(s):  
An Huang ◽  
Shuo Liu ◽  
Haijun Li ◽  
Hongdi Luo ◽  
Qingyong Ni ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Next Generation Sequencing ◽  
Control Region ◽  
Evolutionary Process ◽  
Tree Frog ◽  
Next Generation ◽  
Sequencing Technologies ◽  
Mitogenome Sequence ◽  
Nd5 Gene ◽  
Generation Sequencing

The mitochondrial genome (mitogenome) sequence of the tree frog Polypedates megacephalus (16,473 bp) was previously reported as having the unusual characteristic of lacking the ND5 gene. In this study, a new mitogenome of P. megacephalus (19,952 bp) was resequenced using the next-generation sequencing (NGS) and standard Sanger sequencing technologies. It was discovered that the ND5 gene was not lost but translocated to the control region (CR) from its canonical location between the ND4 and ND6 genes. In addition, a duplicated control region was found in the new mitogenome of this species. Conservative region identification of the ND5 gene and phylogenetic analysis confirmed that the ND5 gene was located between two control regions. The phylogenetic relationship among 20 related species of anura revealed a rearrangement of the ND5 gene during the evolutionary process. These results also highlighted the advantages of next-generation sequencing. It will not only decrease the time and cost of sequencing, but also will eliminate the errors in published mitogenome databases.

scholarly journals West Nile virus lineage 2 isolated from Culex modestus mosquitoes in the Czech Republic, 2013: expansion of the European WNV endemic area to the North?

2014 ◽  
Vol 19 (31) ◽  
Author(s):  
I Rudolf ◽  
T Bakonyi ◽  
O Šebesta ◽  
J Mendel ◽  
J Peško ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Czech Republic ◽  
West Nile Virus ◽  
Endemic Area ◽  
Fish Ponds ◽  
West Nile ◽  
The Czech Republic ◽  
The North ◽  
Lineage 2 ◽  
South Moravia

We report the detection and isolation of four almost identical strains of West Nile virus (WNV) lineage 2 from Culex modestus mosquitoes collected at three fish ponds in South Moravia, Czech Republic, during August 2013. Phylogenetic analysis demonstrated that the Czech WNV strains isolated are closely related to Austrian, Italian and Serbian strains reported in 2008, 2011 and 2012, respectively. Our findings show the current northernmost range of lineage 2 WNV in Europe.

Reassortant Cache Valley virus associated with acute febrile, non-neurologic illness, Missouri

2021 ◽  
Author(s):  
Molly Baker ◽  
Holly R Hughes ◽  
S Hasan Naqvi ◽  
Karen Yates ◽  
Jason O Velez ◽  
...  
Keyword(s):  
Renal Failure ◽  
Phylogenetic Analysis ◽  
Next Generation Sequencing ◽  
Lactic Acidosis ◽  
Adult Male ◽  
Gastrointestinal Symptoms ◽  
Next Generation ◽  
Cache Valley Virus ◽  
Cache Valley ◽  
Generation Sequencing

Abstract An adult male from Missouri sought care for fever, fatigue, and gastrointestinal symptoms. He had leukopenia and thrombocytopenia and was treated for a presumed tickborne illness. His condition deteriorated with respiratory and renal failure, lactic acidosis, and hypotension. Next-generation sequencing and phylogenetic analysis identified a reassortant Cache Valley virus.

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