Featured Research

from universities, journals, and other organizations

Closing The Gaps In The Human Genome

Date:
June 15, 2009
Source:
BioMed Central
Summary:
Sequence gaps in human chromosome 15 have been closed by the application of 454 technology. Researchers have described a simple and scalable method for finishing nonstructural gaps in genome assemblies.

Sequence gaps in human chromosome 15 have been closed by the application of 454 technology. Researchers have described a simple and scalable method for finishing non-structural gaps in genome assemblies.

Manuel Garber worked with a team of researchers from the Broad Institute of MIT and Harvard, Massachusetts, USA, to develop an approach for closing class III gaps, those non-structural gaps that are refractory to clone-based approaches, using 454 sequencing. He said, "While clone-based methods remain an effective means of attacking structural gaps, they will not resolve gaps that arise from sequences recalcitrant to bacterial cloning. The human genome still contains 127 class III gaps, many of which are likely to be closable by the method described here".

A key difference between the 454 methodology and traditional sequencing is that the 454 process has no bacterial cloning step. Garber and his colleagues designed six primer pairs anchored in unique sequences that tiled the three gaps and used PCR to amplify these regions. They then sheared and directly sequenced the gap-spanning PCR products, using the 454 Life Sciences GS FLX. For each gap, the 454 reads were successfully assembled into a single, high-quality contig spanning the gap region.

Garber said, "The technique we present could be also be applied to the targeted closure of gaps in other finished or near finished genomes such as mouse and dog, which contain 103 and 47 class III gaps, respectively".


Story Source:

The above story is based on materials provided by BioMed Central. Note: Materials may be edited for content and length.


Journal Reference:

  1. Manuel Garber, Michael C Zody, Harindra M Arachchi, Aaron Berlin, Sante Gnerre, Lisa M Green, Niall Lennon and Chad Nusbaum. Closing gaps in the human genome using sequencing by synthesis. Genome Biology, (in press) [link]

Cite This Page:

BioMed Central. "Closing The Gaps In The Human Genome." ScienceDaily. ScienceDaily, 15 June 2009. <www.sciencedaily.com/releases/2009/06/090601211425.htm>.
BioMed Central. (2009, June 15). Closing The Gaps In The Human Genome. ScienceDaily. Retrieved September 30, 2014 from www.sciencedaily.com/releases/2009/06/090601211425.htm
BioMed Central. "Closing The Gaps In The Human Genome." ScienceDaily. www.sciencedaily.com/releases/2009/06/090601211425.htm (accessed September 30, 2014).

Share This



More Health & Medicine News

Tuesday, September 30, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

How 'Yes Means Yes' Defines Sexual Assault

How 'Yes Means Yes' Defines Sexual Assault

Newsy (Sep. 29, 2014) Aimed at reducing sexual assaults on college campuses, California has adopted a new law changing the standard of consent for sexual activity. Video provided by Newsy
Powered by NewsLook.com
Scientists May Have Found An Early Sign Of Pancreatic Cancer

Scientists May Have Found An Early Sign Of Pancreatic Cancer

Newsy (Sep. 29, 2014) Researchers looked at 1,500 blood samples and determined people who developed pancreatic cancer had more branched chain amino acids. Video provided by Newsy
Powered by NewsLook.com
Colo. Doctors See Cluster of Enterovirus Cases

Colo. Doctors See Cluster of Enterovirus Cases

AP (Sep. 29, 2014) Doctors at the Children's Hospital of Colorado say they have treated over 4,000 children with serious respiratory illnesses since August. Nine of the patients have shown distinct neurological symptoms, including limb weakness. (Sept. 29) Video provided by AP
Powered by NewsLook.com
Dr.'s Unsure of Cause of Fast-Spreading Virus

Dr.'s Unsure of Cause of Fast-Spreading Virus

AP (Sep. 29, 2014) Doctors at the Children's Hospital of Colorado say they have treated over 4,000 children with serious respiratory illnesses since August. Nine of the patients have shown distinct neurological symptoms, including limb weakness. (Sept. 29) Video provided by AP
Powered by NewsLook.com

Search ScienceDaily

Number of stories in archives: 140,361

Find with keyword(s):
Enter a keyword or phrase to search ScienceDaily for related topics and research stories.

Save/Print:
Share:

Breaking News:

Strange & Offbeat Stories


Health & Medicine

Mind & Brain

Living & Well

In Other News

... from NewsDaily.com

Science News

Health News

Environment News

Technology News



Save/Print:
Share:

Free Subscriptions


Get the latest science news with ScienceDaily's free email newsletters, updated daily and weekly. Or view hourly updated newsfeeds in your RSS reader:

Get Social & Mobile


Keep up to date with the latest news from ScienceDaily via social networks and mobile apps:

Have Feedback?


Tell us what you think of ScienceDaily -- we welcome both positive and negative comments. Have any problems using the site? Questions?
Mobile: iPhone Android Web
Follow: Facebook Twitter Google+
Subscribe: RSS Feeds Email Newsletters
Latest Headlines Health & Medicine Mind & Brain Space & Time Matter & Energy Computers & Math Plants & Animals Earth & Climate Fossils & Ruins