Featured Research

from universities, journals, and other organizations

The bigger picture of population genomics

Date:
January 5, 2012
Source:
Veterinärmedizinische Universität Wien
Summary:
More and more laboratories are generating more and more data relating to the sequence of DNA, but making sense of the mass of data remains tricky and attention is switching to automatic procedures to help researchers understand large amounts of sequence information. Researchers have now developed a tool to compare data from sequences of pooled samples.

With the availability of rapid-throughput methods and the associated drop in sequencing costs, more and more laboratories are generating more and more data relating to the sequence of DNA, the hereditary material responsible for the differences between species and individuals. But making sense of the mass of data remains tricky and attention is switching to automatic procedures to help researchers understand large amounts of sequence information. The group of Christian Schlötterer at the University of Veterinary Medicine, Vienna has now developed a tool to compare data from sequences of pooled samples.

Related Articles


The program is described in the current issue of the journal Bioinformatics.

Not so long ago it was the work of many years to sequence the genome of a single organism: the human genome project, for example, took many laboratories a total of 13 years to complete. The availability of so-called next-generation sequencing methods makes it easy -- and comparatively cheap -- to sequence DNA, although sequencing the large number of individuals required for population genetics studies is still time-consuming and costly and has thus been restricted to few organisms.

The group of Christian Schlötterer of the Institute of Population Genetics at the University of Veterinary Medicine, Vienna has shown previously that pooling samples enables population genetics studies to be undertaken at significantly reduced costs. Despite the wide applicability and obvious power of the method, however, it has so far proven possible to apply next-generation sequencing at the scale of populations to only few model systems. The problem lies in the interpretation of the data. And this is where the latest work from Schlötterer's group comes in. Robert Kofler, Ram Vinay Pandey and Schlötterer now report the development of a software package -- catchily termed "PoPoolation2" -- that makes it possible even for non-experts to compare populations.

The package offers a wide range of statistical methods to determine how the frequencies of particular forms -- termed alleles -- of genes vary between populations. The program has been tested on the sequences of a single chromosome from two distinct populations of the fruit fly Drosophila melanogaster and the results confirm that the program can correctly predict the levels of divergence between the samples. As Schlötterer says, "PoPoolation2 helps us compare the allele frequencies between populations. It will enable us quickly and cheaply to compare how populations of different species have adapted differently to their environments, giving us better information on the big picture of evolution in practice."


Story Source:

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


Journal Reference:

  1. R. Kofler, R. V. Pandey, C. Schlotterer. PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq). Bioinformatics, 2011; 27 (24): 3435 DOI: 10.1093/bioinformatics/btr589

Cite This Page:

Veterinärmedizinische Universität Wien. "The bigger picture of population genomics." ScienceDaily. ScienceDaily, 5 January 2012. <www.sciencedaily.com/releases/2012/01/120105101445.htm>.
Veterinärmedizinische Universität Wien. (2012, January 5). The bigger picture of population genomics. ScienceDaily. Retrieved October 31, 2014 from www.sciencedaily.com/releases/2012/01/120105101445.htm
Veterinärmedizinische Universität Wien. "The bigger picture of population genomics." ScienceDaily. www.sciencedaily.com/releases/2012/01/120105101445.htm (accessed October 31, 2014).

Share This



More Health & Medicine News

Friday, October 31, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

Fauci Says Ebola Risk in US "essentially Zero"

Fauci Says Ebola Risk in US "essentially Zero"

AP (Oct. 30, 2014) — NIAID Director Anthony Fauci said the risk of Ebola becoming an epidemic in the U.S. is essentially zero Thursday at the Washington Ideas Forum. He also said an Ebola vaccine will be tested in West Africa in the next few months. (Oct. 30) Video provided by AP
Powered by NewsLook.com
Nurse Defies Ebola Quarantine With Bike Ride

Nurse Defies Ebola Quarantine With Bike Ride

AP (Oct. 30, 2014) — A nurse who vowed to defy Maine's voluntary quarantine for health care workers who treated Ebola patients followed through on her promise Thursday, leaving her home for an hour-long bike ride. (Oct. 30) Video provided by AP
Powered by NewsLook.com
Pot-Infused Edibles Raise Concerns in Colorado

Pot-Infused Edibles Raise Concerns in Colorado

AFP (Oct. 30, 2014) — Colorado may have legalized marijuana for recreational use, but the debate around the decision still continues, with a recent - failed - attempt to ban cannabis-infused edibles. Duration: 01:53 Video provided by AFP
Powered by NewsLook.com
British Navy Ship Arrives in Sierra Leone With Ebola Aid

British Navy Ship Arrives in Sierra Leone With Ebola Aid

AFP (Oct. 30, 2014) — The British ship RFA ARGUS arrived in Sierra Leone to deliver supplies and equipment to help the fight against Ebola. Duration: 00:42 Video provided by AFP
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