New cow genome sequence released

April 23, 2009
Cow

Scientists from the University of Maryland have published their assembly of the domestic cow (Bos taurus), an important new resource for the genetics community. The new version of the cow genome improves considerably on other assemblies, in terms of both completeness and accuracy. The article describing their research is freely available in BioMed Central's open access journal Genome Biology.

The research team led by Steven Salzberg developed special-purpose software to assemble 35 million DNA sequence fragments into the 30 chromosomes that make up the Bos taurus genome. The algorithms use paired-end sequence information, mapping data, and synteny with the human genome to detect errors, correct inverted segments and fill in sequence gaps. The resulting assembly has around 91% of the assembled genome anchored onto chromosomes.

The researchers believe their assembly is the best available, thanks to its completeness and the algorithm's ability to smooth out thousands of errors. Their comparisons demonstrate that the new cow genome assembly has better agreement with independent genetic maps, and a more complete representation of cow genes, than alternative assemblies.

The new assembly places some 150 million nucleotides (6%) more DNA sequence data onto chromosomes than the other draft assembly currently available, BosTau4.0 from the Baylor College of Medicine (BCM4). A new, expanded cow-human synteny map increases the number of syntenic breakpoints by approximately 30%. Salzberg's team also pinpointed a portion of the Bos taurus Y chromosome for the first time.

"Until the assembly is truly finished - a state that no mammalian genome, including human, has yet reached - we will continue to incorporate new data to fill in gaps, to correct the mis-oriented regions, and to place more sequences onto ," says Salzberg. The alpaca and sheep genomes are currently being sequenced, and should provide a rich source for making further improvements between these closely related mammals.

Although sequencing and assembly of mammalian genomes has become commonplace since the was first sequenced seven years ago, assembling large genomes accurately remains a challenge.

More information: The complete assembly has been deposited at GenBank (accession DAAA00000000); the version described in the Genome Biology article is (DAAA01000000). The assembly is also available at ftp://ftp.cbcb.umd.edu/pub/data/Bos_taurus

Paper: A whole-genome assembly of the domestic , Bos taurus
Aleksey V Zimin, Arthur L Delcher, Liliana Florea, David R Kelley, Michael C Schatz, Daniela Puiu, Finnian Hanrahan, Geo Pertea, Curtis P Van Tassell, Tad S Sonstegard, Guillaume Marcais, Michael Roberts, Poorani Subramanian, James A Yorke and Steven L Salzberg , Biology (in press), http://genomebiology.com/10/4/r42

Source: BioMed Central (news : web)

Explore further: Researchers assemble second non-human primate genome

Related Stories

Researchers assemble second non-human primate genome

February 9, 2006

A multi-center team has deposited the draft genome sequence of the rhesus macaque monkey into free public databases for use by the worldwide research community, the National Human Genome Research Institute (NHGRI), one of ...

Mouse to man: The story of chromosomes

April 19, 2006

U.S. scientists say sequencing human chromosome 17 and mouse chromosome 11 has offered unique insights into the evolution of the genome of higher mammals.

Human chromosome 3 is sequenced

April 27, 2006

The sequencing of human chromosome 3 at Baylor College represents the final stage of a multi-year project to sequence the human genome.

Completed genome set to transform the cow

August 16, 2006

The ability of scientists to improve health and disease management of cattle and enhance the nutritional value of beef and dairy products has received a major boost with the release this week of the most complete sequence ...

Recommended for you

Genomes uncover life's early history

August 24, 2015

A University of Manchester scientist is part of a team which has carried out one of the biggest ever analyses of genomes on life of all forms.

Rare nautilus sighted for the first time in three decades

August 25, 2015

In early August, biologist Peter Ward returned from the South Pacific with news that he encountered an old friend, one he hadn't seen in over three decades. The University of Washington professor had seen what he considers ...

Why a mutant rice called Big Grain1 yields such big grains

August 24, 2015

(Phys.org)—Rice is one of the most important staple crops grown by humans—very possibly the most important in history. With 4.3 billion inhabitants, Asia is home to 60 percent of the world's population, so it's unsurprising ...

0 comments

Please sign in to add a comment. Registration is free, and takes less than a minute. Read more

Click here to reset your password.
Sign in to get notified via email when new comments are made.