The complete sequence of a 10.8 kb segment distal ofSUF2 on the right arm of chromosome III fromSaccharomyces cerevisiae reveals seven open reading frames including the RVS161, ADP1 and PGK genes

Yeast ◽  
1992 ◽  
Vol 8 (5) ◽  
pp. 409-417 ◽  
Author(s):  
Jacek Skala ◽  
Bénedicte Purnelle ◽  
André Goffeau
Keyword(s):  
Complete Sequence ◽  
Open Reading Frames ◽  
Chromosome Iii ◽  
The Right ◽  
Reading Frames

III. Yeast sequencing reports. The complete sequence of a 11,953 bp fragment from C1G on chromosome III encompasses four new open reading frames

Yeast ◽  
1991 ◽  
Vol 7 (5) ◽  
pp. 533-538 ◽  
Author(s):  
Massoud Ramezani Rad ◽  
Katja Lützenkirchen ◽  
Gang Xu ◽  
Ulrich Kleinhans ◽  
Cornelis P. Hollenberg
Keyword(s):  
Complete Sequence ◽  
Open Reading Frames ◽  
Chromosome Iii ◽  
Reading Frames

scholarly journals Complete Sequence and Evolutionary Genomic Analysis of the Pseudomonas aeruginosa Transposable Bacteriophage D3112

2004 ◽  
Vol 186 (2) ◽  
pp. 400-410 ◽  
Author(s):  
Pauline W. Wang ◽  
Linda Chu ◽  
David S. Guttman
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Phylogenetic Analyses ◽  
Genetic Material ◽  
Genomic Analysis ◽  
Opportunistic Pathogen ◽  
Complete Sequence ◽  
International Committee ◽  
Open Reading Frames ◽  
The Right ◽  
Reading Frames

ABSTRACT Bacteriophage D3112 represents one of two distinct groups of transposable phage found in the clinically relevant, opportunistic pathogen Pseudomonas aeruginosa. To further our understanding of transposable phage in P. aeruginosa, we have sequenced the complete genome of D3112. The genome is 37,611 bp, with an overall G+C content of 65%. We have identified 53 potential open reading frames, including three genes (the c repressor gene and early genes A and B) that have been previously characterized and sequenced. The organization of the putative coding regions corresponds to published genetic and transcriptional maps and is very similar to that of enterobacteriophage Mu. In contrast, the International Committee on Taxonomy of Viruses has classified D3112 as a λ-like phage on the basis of its morphology. Similarity-based analyses identified 27 open reading frames with significant matches to proteins in the NCBI databases. Forty-eight percent of these were similar to Mu-like phage and prophage sequences, including proteins responsible for transposition, transcriptional regulation, virion morphogenesis, and capsid formation. The tail proteins were highly similar to prophage sequences in Escherichia coli and phage Phi12 from Staphylococcus aureus, while proteins at the right end were highly similar to proteins in Xylella fastidiosa. We performed phylogenetic analyses to understand the evolutionary relationships of D3112 with respect to Mu-like versus λ-like bacteriophages. Different results were obtained from similarity-based versus phylogenetic analyses in some instances. Overall, our findings reveal a highly mosaic structure and suggest that extensive horizontal exchange of genetic material played an important role in the evolution of D3112.

VII. Yeast sequencing reports. The complete sequence of a 9000 bp fragment of the right arm ofSaccharomyces cerevisiae chromosome VII contains four previously unknown open reading frames

Yeast ◽  
1995 ◽  
Vol 11 (11) ◽  
pp. 1087-1091 ◽  
Author(s):  
P. Guerreiro ◽  
A. Maia E. Silva ◽  
T. Barreiros ◽  
C. Rodrigues-Pousada ◽  
J. Arroyo ◽  
...  
Keyword(s):  
Complete Sequence ◽  
Open Reading Frames ◽  
The Right ◽  
Reading Frames

The complete sequence of K3B, a 7·9 kb fragment betweenPGK1 andCRY1 on chromosome III, reveals the presence of seven open reading frames

Yeast ◽  
1992 ◽  
Vol 8 (3) ◽  
pp. 205-213 ◽  
Author(s):  
Paul-André Bolle ◽  
Véronique Gilliquet ◽  
Gilbert Berben ◽  
Jacques Dumont ◽  
François Hilger
Keyword(s):  
Complete Sequence ◽  
Open Reading Frames ◽  
Chromosome Iii ◽  
Reading Frames

The complete sequence of a 10·8kb fragment to the right of the chromosome III centromere ofSaccharomyces cerevisiae

Yeast ◽  
1992 ◽  
Vol 8 (1) ◽  
pp. 61-70 ◽  
Author(s):  
Nicolas Biteau ◽  
Christophe Fremaux ◽  
Sylvie Hebrard ◽  
Annie Menara ◽  
Michael Aigle ◽  
...  
Keyword(s):  
Complete Sequence ◽  
Chromosome Iii ◽  
The Right

scholarly journals First Staphylococcal Cassette ChromosomemecContaining amecB-Carrying Gene Complex Independent of Transposon Tn6045in a Macrococcus caseolyticus Isolate from a Canine Infection

2015 ◽  
Vol 59 (8) ◽  
pp. 4577-4583 ◽  
Author(s):  
Elena Gómez-Sanz ◽  
Sybille Schwendener ◽  
Andreas Thomann ◽  
Stefanie Gobeli Brawand ◽  
Vincent Perreten
Keyword(s):  
Integration Site ◽  
Direct Repeat ◽  
Open Reading Frames ◽  
Gene Complex ◽  
Direct Repeats ◽  
Content Type ◽  
Canine Infection ◽  
The Right ◽  
Lactamase Gene ◽  
Reading Frames

ABSTRACTA methicillin-resistantmecB-positiveMacrococcus caseolyticus(strain KM45013) was isolated from the nares of a dog with rhinitis. It contained a novel 39-kb transposon-defective completemecB-carrying staphylococcal cassette chromosomemecelement (SCCmecKM45013). SCCmecKM45013contained 49 coding sequences (CDSs), was integrated at the 3′ end of the chromosomalorfXgene, and was delimited at both ends by imperfect direct repeats functioning as integration site sequences (ISSs). SCCmecKM45013presented two discontinuous regions of homology (SCCmeccoverage of 35%) to the chromosomal and transposon Tn6045-associated SCCmec-like element ofM. caseolyticusJCSC7096: (i) themecgene complex (98.8% identity) and (ii) theccr-carrying segment (91.8% identity). Themecgene complex, located at the right junction of the cassette, also carried the β-lactamase geneblaZm(mecRm-mecIm-mecB-blaZm). SCCmecKM45013contained two cassette chromosome recombinase genes,ccrAm2andccrBm2, which shared 94.3% and 96.6% DNA identity with those of the SCCmec-like element of JCSC7096 but shared less than 52% DNA identity with the staphylococcalccrABandccrCgenes. Three distinct extrachromosomal circularized elements (the entire SCCmecKM45013, ΨSCCmecKM45013lacking theccrgenes, and SCCKM45013lackingmecB) flanked by one ISS copy, as well as the chromosomal regions remaining after excision, were detected. An unconventional circularized structure carrying themecBgene complex was associated with two extensive direct repeat regions, which enclosed two open reading frames (ORFs) (ORF46 and ORF51) flanking the chromosomalmecB-carrying gene complex. This study revealedM. caseolyticusas a potential disease-associated bacterium in dogs and also unveiled an SCCmecelement carryingmecBnot associated with Tn6045in the genusMacrococcus.

An Umbra-related Virus Found in Vasconcellea X Heilbornii (Caricaceae)

2021 ◽  
Author(s):  
Juan F Cornejo-Franco ◽  
Francisco Flores ◽  
Dimitre Mollov ◽  
diego fernando quito-avila
Keyword(s):  
Phylogenetic Analysis ◽  
New Genus ◽  
Complete Sequence ◽  
Open Reading Frames ◽  
Rna Dependent Rna Polymerase ◽  
Sequence Comparisons ◽  
Genomic Features ◽  
Overlapping Open Reading Frames ◽  
Reading Frames

Abstract The complete sequence of a new viral RNA from babaco (Vasconcellea x heilbornii) was determined. The genome consisted of 4,584 nucleotides organized in two non-overlapping open reading frames (ORFs 1 and 2), a 9-nt-long noncoding region (NCR) at the 5’ terminus and a 1,843 -nt-long NCR at the 3’ terminus. Sequence comparisons of ORF 2 revealed homology to the RNA-dependent-RNA-polymerase (RdRp) of several umbra- and umbra-related viruses. Phylogenetic analysis of the RdRp placed the new virus in a well-supported and cohesive clade that includes umbra-like viruses reported from papaya, citrus, opuntia, maize and sugarcane hosts. This clade shares a most recent ancestor with the umbraviruses but has different genomic features. The creation of a new genus, within the Tombusviridae, is proposed for the classification of these novel viruses.

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