scholarly journals Revisiting the Clinal Concept of Evolution and Dispersal for the Tick-Borne Flaviviruses by Using Phylogenetic and Biogeographic Analyses

2012 ◽  
Vol 86 (16) ◽  
pp. 8663-8671 ◽  
Author(s):  
D. M. Heinze ◽  
E. A. Gould ◽  
N. L. Forrester
Keyword(s):  
Geographic Distance ◽  
Open Reading Frame ◽  
Northern Eurasia ◽  
Envelope Gene ◽  
Nonlinear Regression Analysis ◽  
Reading Frame ◽  
Tick Borne Encephalitis ◽  
Ecological Changes ◽  
Beast Analysis ◽  
Linear And Nonlinear

Tick-borne flaviviruses (TBF) are widely dispersed across Africa, Europe, Asia, Oceania, and North America, and some present a significant threat to human health. Seminal studies on tick-borne encephalitis viruses (TBEV), based on partial envelope gene sequences, predicted a westward clinal pattern of evolution and dispersal across northern Eurasia, terminating in the British Isles. We tested this hypothesis using all available full-length open reading frame (ORF) TBF sequences. Phylogenetic analysis was consistent with current reports. However, linear and nonlinear regression analysis of genetic versus geographic distance combined with BEAST analysis identified two separate clines, suggesting that TBEV spread both east and west from a central point. In addition, BEAST analysis suggested that TBF emerged and dispersed more than 16,000 years ago, significantly earlier than previously predicted. Thus, climatic and ecological changes may have played a greater role in TBF dispersal than humans.

Expression of a second open reading frame present in the genome of tick-borne encephalitis virus strain Neudoerfl is not detectable in infected cells

Virus Genes ◽  
2016 ◽  
Vol 52 (3) ◽  
pp. 309-316 ◽  
Author(s):  
Jiří Černý ◽  
Martin Selinger ◽  
Martin Palus ◽  
Zuzana Vavrušková ◽  
Hana Tykalová ◽  
...  
Keyword(s):  
Virus Strain ◽  
Encephalitis Virus ◽  
Open Reading Frame ◽  
Reading Frame ◽  
Tick Borne Encephalitis ◽  
Infected Cells ◽  
Tick Borne Encephalitis Virus

scholarly journals SIRE-1, A putative plant retrovirus is closely related to a legume TY1-copia retrotransposon family

2007 ◽  
Vol 12 (1) ◽  
Author(s):  
Stephen Pearce
Keyword(s):  
Gene Order ◽  
Open Reading Frame ◽  
Southern Analysis ◽  
Envelope Gene ◽  
Reading Frame ◽  
Retrotransposon Family ◽  
Copia Retrotransposon ◽  
Wide Family ◽  
Copia Retrotransposons

AbstractSIRE-1 is a potential soybean retrovirus which has a gene order similar to Ty1-copia retrotransposons but also contains an envelope-like open reading frame (ORF), which is characteristic of retroviruses. PCR and Southern analysis reveals that SIRE-1 is closely related to a legume-wide family of envelope-lacking Ty1-copia group retrotransposons which suggests that SIRE-1 was formed by the recent acquisition of an envelope gene by a Ty1-copia retrotransposon.

scholarly journals The cDNA for rat selenoprotein P contains 10 TGA codons in the open reading frame

1991 ◽  
Vol 266 (16) ◽  
pp. 10050-10053
Author(s):  
K.E. Hill ◽  
R.S. Lloyd ◽  
J.G. Yang ◽  
R. Read ◽  
R.F. Burk
Keyword(s):  
Open Reading Frame ◽  
Selenoprotein P ◽  
Reading Frame

scholarly journals The Cloning and Molecular Analysis of pawn-B in Paramecium tetraurelia

Genetics ◽  
2000 ◽  
Vol 155 (3) ◽  
pp. 1105-1117 ◽  
Author(s):  
W John Haynes ◽  
Kit-Yin Ling ◽  
Robin R Preston ◽  
Yoshiro Saimi ◽  
Ching Kung
Keyword(s):  
Genomic Library ◽  
Open Reading Frame ◽  
Paramecium Tetraurelia ◽  
Wild Type ◽  
Rt Pcr ◽  
Reading Frame ◽  
Close Proximity ◽  
In The Wild ◽  
Dna Fragment ◽  
Alternative Sites

Abstract Pawn mutants of Paramecium tetraurelia lack a depolarization-activated Ca2+ current and do not swim backward. Using the method of microinjection and sorting a genomic library, we have cloned a DNA fragment that complements pawn-B (pwB/pwB). The minimal complementing fragment is a 798-bp open reading frame (ORF) that restores the Ca2+ current and the backward swimming when expressed. This ORF contains a 29-bp intron and is transcribed and translated. The translated product has two putative transmembrane domains but no clear matches in current databases. Mutations in the available pwB alleles were found within this ORF. The d4-95 and d4-96 alleles are single base substitutions, while d4-662 (previously pawn-D) harbors a 44-bp insertion that matches an internal eliminated sequence (IES) found in the wild-type germline DNA except for a single C-to-T transition. Northern hybridizations and RT-PCR indicate that d4-662 transcripts are rapidly degraded or not produced. A second 155-bp IES in the wild-type germline ORF excises at two alternative sites spanning three asparagine codons. The pwB ORF appears to be separated from a 5′ neighboring ORF by only 36 bp. The close proximity of the two ORFs and the location of the pwB protein as indicated by GFP-fusion constructs are discussed.

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