Skip to main content
Premium Trial:

Request an Annual Quote

Zebrafish Sequence Set to Wrap at Sanger by Mid-2005

COLD SPRING HARBOR, NY, May 9 - A project to map the zebrafish genome is expected to wrap up by the middle of 2005, but the three prominent research groups that have undertaken the project will make data public as they become available, a mapper told GenomeWeb today.

 

Researchers from the Hubrecht Lab, the Max-Planck Institute, and the Sanger Centre have been using a family of Applied Biosystems 3700 sequencers to perform their analysis, said Sean Humphray, a mapper from the Sanger, which is performing data coordination, map assembly, and manipulation.

 

A bacterial-clone map is currently being developed using restriction-enzyme fingerprinting. Two libraries--CHORI-211 and the DanioKey--will form the basis for the map, whose aim is for 10 to 15 times coverage across the 1.7gb-long genome.

 

These data will eventually pave the way for whole genome sequencing, which will be done at the Sanger through a combination of whole genome shotgun and clone-by-clone sequencing.

 

End sequencing of both libraries is currently underway, said Humphray, who spoke with a GenomeWeb reporter this afternoon at his poster during Cold Spring Harbor's 2002 Genome Sequencing & Biology meeting, which ends here on Saturday. RH mapping, which will take place at Max-Planck and at the Children's Hospital in Boston, will further refine the data, he said.

 

So far the team has assembled 102,000 fingerprints into 9,245 contigs, according to Humphray's poster.

The Scan

Germline-Targeting HIV Vaccine Shows Promise in Phase I Trial

A National Institutes of Health-led team reports in Science that a broadly neutralizing antibody HIV vaccine induced bnAb precursors in 97 percent of those given the vaccine.

Study Uncovers Genetic Mutation in Childhood Glaucoma

A study in the Journal of Clinical Investigation ties a heterozygous missense variant in thrombospondin 1 to childhood glaucoma.

Gene Co-Expression Database for Humans, Model Organisms Gets Update

GeneFriends has been updated to include gene and transcript co-expression networks based on RNA-seq data from 46,475 human and 34,322 mouse samples, a new paper in Nucleic Acids Research says.

New Study Investigates Genomics of Fanconi Anemia Repair Pathway in Cancer

A Rockefeller University team reports in Nature that FA repair deficiency leads to structural variants that can contribute to genomic instability.