scholarly journals Centromeres of the YeastKomagataella phaffii(Pichia pastoris)Have a Simple Inverted-Repeat Structure

2016 ◽  
Vol 8 (8) ◽  
pp. 2482-2492 ◽  
Author(s):  
Aisling Y. Coughlan ◽  
Sara J. Hanson ◽  
Kevin P. Byrne ◽  
Kenneth H. Wolfe
Keyword(s):  
Pichia Pastoris ◽  
Inverted Repeat ◽  
Repeat Structure

scholarly journals Centromeres of the yeast Komagataella phaffii (Pichia pastoris) have a simple inverted-repeat structure

2016 ◽  
Author(s):  
Aisling Y. Coughlan ◽  
Sara J. Hanson ◽  
Kevin P. Byrne ◽  
Kenneth H. Wolfe
Keyword(s):  
Candida Albicans ◽  
Pichia Pastoris ◽  
Inverted Repeat ◽  
Methylotrophic Yeast ◽  
H3k9 Methylation ◽  
Komagataella Phaffii ◽  
Repeat Structure ◽  
Different Types ◽  
Mating Type Switching ◽  
The Relationship

AbstractCentromere organization has evolved dramatically in one clade of fungi, the Saccharomycotina. These yeasts have lost the ability to make normal eukaryotic heterochromatin with histone H3K9 methylation, which is a major component of pericentromeric regions in other eukaryotes. Following this loss, several different types of centromere emerged, including two types of sequence-defined ("point") centromeres, and the epigenetically-defined "small regional" centromeres of Candida albicans. Here we report that centromeres of the methylotrophic yeast Komagataella phaffii (formerly called Pichia pastoris) are structurally-defined. Each of its four centromeres consists of a 2-kb inverted repeat (IR) flanking a 1-kb central core (mid) region. The four centromeres are unrelated in sequence. CenH3 (Cse4) binds strongly to the cores, with a decreasing gradient along the IRs. This mode of organization resembles Schizosaccharomyces pombe centromeres but is much more compact and lacks the extensive flanking heterochromatic otr repeats. Different isolates of K. phaffii show polymorphism for the orientation of the mid regions, due to recombination in the IRs. CEN4 is located within a 138-kb region that changes orientation during mating-type switching, but switching does not induce recombination of centromeric IRs. The existing genetic toolbox for K. phaffii should facilitate analysis of the relationship between the IRs and the establishment and maintenance of centromeres in this species.

Instability of integrated hepatitis B virus DNA with inverted repeat structure in a transgenic mouse

1989 ◽  
Vol 37 (2) ◽  
pp. 273-278 ◽  
Author(s):  
Okio Hino ◽  
Kimie Nomura ◽  
Keiko Ohtake ◽  
Tokuich Kawaguchi ◽  
Haruo Sugano ◽  
...  
Keyword(s):  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Transgenic Mouse ◽  
Inverted Repeat ◽  
Hepatitis B Virus Dna ◽  
Repeat Structure ◽  
B Virus

scholarly journals Characterization of a Mobile clpL Gene from Lactobacillus rhamnosus

2005 ◽  
Vol 71 (4) ◽  
pp. 2061-2069 ◽  
Author(s):  
Aki Suokko ◽  
Kirsi Savijoki ◽  
Erja Malinen ◽  
Airi Palva ◽  
Pekka Varmanen
Keyword(s):  
Elevated Temperature ◽  
Binding Sites ◽  
Inverted Repeat ◽  
Promoter Region ◽  
Lactobacillus Rhamnosus ◽  
Sequence Analyses ◽  
Promoter Regions ◽  
Repeat Structure ◽  
Genes Encoding

ABSTRACT Two genes encoding ClpL ATPase proteins were identified in a probiotic Lactobacillus rhamnosus strain, E-97800. Sequence analyses revealed that the genes, designated clpL1 and clpL2, share 80% identity. The clpL2 gene showed the highest degree of identity (98.5%) to a clpL gene from Lactobacillus plantarum WCFSI, while it was not detected in three other L. rhamnosus strains studied. According to Northern analyses, the expression of clpL1 and the clpL2 were induced during heat shock by >20- and 3-fold, respectively. The functional promoter regions were determined by primer extension analyses, and the clpL1 promoter was found to be overlapped by an inverted repeat structure identical to the conserved CIRCE element, indicating that clpL1 belongs to the HrcA regulon in L. rhamnosus. No consensus binding sites for HrcA or CtsR could be identified in the clpL2 promoter region. Interestingly, the clpL2 gene was found to be surrounded by truncated transposase genes and flanked by inverted repeat structures nearly identical to the terminal repeats of the ISLpl1 from L. plantarum HN38. Furthermore, clpL2 was shown to be mobilized during prolonged cultivation at elevated temperature. The presence of a gene almost identical to clpL2 in L. plantarum and its absence in other L. rhamnosus strains suggest that the L. rhamnosus E-97800 has acquired the clpL2 gene via horizontal transfer. No change in the stress tolerance of the ClpL2-deficient derivative of E-97800 compared to the parental strain was observed.

scholarly journals An anomalous Ty1 structure attributed to an error in reverse transcription

1986 ◽  
Vol 6 (4) ◽  
pp. 1334-1338
Author(s):  
B Errede ◽  
M Company ◽  
R Swanstrom
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Nucleotide Sequence ◽  
Reverse Transcription ◽  
Inverted Repeat ◽  
Repeat Structure

We have determined the nucleotide sequence of both delta elements of a Ty1 transposon inserted near the CYC7 gene in the Saccharomyces cerevisiae CYC7-H2 mutant. The upstream delta element in this Ty1 has an unusual inverted repeat structure that may have been formed by an error during reverse transcription.

scholarly journals An anomalous Ty1 structure attributed to an error in reverse transcription.

1986 ◽  
Vol 6 (4) ◽  
pp. 1334-1338 ◽  
Author(s):  
B Errede ◽  
M Company ◽  
R Swanstrom
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Nucleotide Sequence ◽  
Reverse Transcription ◽  
Inverted Repeat ◽  
Repeat Structure

We have determined the nucleotide sequence of both delta elements of a Ty1 transposon inserted near the CYC7 gene in the Saccharomyces cerevisiae CYC7-H2 mutant. The upstream delta element in this Ty1 has an unusual inverted repeat structure that may have been formed by an error during reverse transcription.

scholarly journals An Archaeal Chromosomal Autonomously Replicating Sequence Element from an Extreme Halophile, Halobacterium sp. Strain NRC-1

2003 ◽  
Vol 185 (20) ◽  
pp. 5959-5966 ◽  
Author(s):  
Brian R. Berquist ◽  
Shiladitya DasSarma
Keyword(s):  
Inverted Repeat ◽  
Halophilic Archaea ◽  
Extreme Halophile ◽  
Haloarcula Marismortui ◽  
Sequence Element ◽  
Autonomously Replicating Sequence ◽  
Autonomous Replication ◽  
Repeat Structure ◽  
Translational Start ◽  
Plasmid Recovery

ABSTRACT We report on the identification and first cloning of an autonomously replicating sequence element from the chromosome of an archaeon, the extreme halophile Halobacterium strain NRC-1. The putative replication origin was identified by association with the orc7 gene and replication ability in the host strain, demonstrated by cloning into a nonreplicating plasmid. Deletion analysis showed that sequences located up to 750 bp upstream of the orc7 gene translational start, plus the orc7 gene and 50 bp downstream, are sufficient to endow the plasmid with replication ability, as judged by expression of a plasmid-encoded mevinolin resistance selectable marker and plasmid recovery after transformation. Sequences located proximal to the two other chromosomally carried haloarchaeal orc genes (orc6 and orc8) are not able to promote efficient autonomous replication. Located within the 750-bp region upstream of orc7 is a nearly perfect inverted repeat of 31 bp, which flanks an extremely AT-rich (44%) stretch of 189 bp. The replication ability of the plasmid was lost when one copy of the inverted repeat was deleted. Additionally, the inverted repeat structure near orc7 homologs in the genomic sequences of two other halophiles, Haloarcula marismortui and Haloferax volcanii, is highly conserved. Our results indicate that, in halophilic archaea, a chromosomal origin of replication is physically linked to orc7 homologs and that this element is sufficient to promote autonomous replication. We discuss the finding of a functional haloarchaeal origin in relation to the large number of orc1-cdc6 homologs identified in the genomes of all haloarchaea to date.

scholarly journals Sequence of thetrnH gene and the inverted repeat structure deletion site of the broad bean chloroplast genome

1990 ◽  
Vol 18 (5) ◽  
pp. 1297-1297 ◽  
Author(s):  
Françoise Herdenberger ◽  
Datta T.N. Pillay ◽  
André Steinmetz
Keyword(s):  
Chloroplast Genome ◽  
Inverted Repeat ◽  
Broad Bean ◽  
Repeat Structure
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