Skewed oligomers and origins of replication.

نویسندگان

  • S L Salzberg
  • A J Salzberg
  • A R Kerlavage
  • J F Tomb
چکیده

The putative origin of replication in prokaryotic genomes can be located by a new method that finds short oligomers whose orientation is preferentially skewed around the origin. The skewed oligomer method is shown to work for all bacterial genomes and one of three archaeal genomes sequences to date, confirming known or predicted origins in most cases and in three cases (H. pylori, M. thermoautotrophicum, and Synechocystis sp.), suggesting origins that were previously unknown. In many cases, the presence of conserved genes and nucleotide motifs confirms the predictions. An algorithm for finding these skewed seven-base and eight-base sequences is described, along with a method for combining evidence from multiple skewed oligomers to accurately locate the replication origin. Possible explanations for the phenomenon of skewed oligomers are discussed. Explanations are presented for why some bacterial genomes contain hundreds of highly skewed oligomers, whereas others contain only a handful.

برای دانلود رایگان متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Cell Timer/Cell Clock

Like the biological clock in the body, replication of each cell type (even different cells of the same organism) follows a timing program. Abnormal function of this timer could be an alarm for a disease like cancer. DNA replication starts from a specific point on the chromosome that is called the origin of replication. In contrast to prokaryotes in which DNA replication starts from a single ...

متن کامل

A Polymeric Protein Anchors the Chromosomal Origin/ParB Complex at a Bacterial Cell Pole

Bacterial replication origins move towards opposite ends of the cell during DNA segregation. We have identified a proline-rich polar protein, PopZ, required to anchor the separated Caulobacter crescentus chromosome origins at the cell poles, a function that is essential for maintaining chromosome organization and normal cell division. PopZ interacts directly with the ParB protein bound to speci...

متن کامل

The Effect of Chitosan and Chitin Oligomers on Gene Expression and Lignans Production in Linum album Cell Cultures

Background: Linum album, a herbaceous and medicinal plant, has been shown to accumulate anti-tumor podophyllotoxin (PTOX) and related lignans. Objective: In this study, we have verified the time-course of cell growth, lignan production in cells treated with chitosan and chitin oligomers. To study mechanism of chitosan and chitin oligomers action, expression of phenylalanine ammonio-lyase (PAL)...

متن کامل

Activation of dormant origins of DNA replication in budding yeast.

Eukaryotic genomes often contain more potential replication origins than are actually used during S phase. The molecular mechanisms that prevent some origins from firing are unknown. Here we show that dormant replication origins on the left arm of budding yeast chromosome III become activated when both passive replication through them is prevented and the Mec1/Rad53 checkpoint that blocks late-...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

عنوان ژورنال:
  • Gene

دوره 217 1-2  شماره 

صفحات  -

تاریخ انتشار 1998