Navigation Links
Sequencing, annotation and comparative analysis of nine BACs of giant panda (Ailuropoda melanoleuca)
Date:3/10/2010

BGI has carried out deep sequence exploration on nine BACs of giant panda with traditional sanger sequencing methods. Sequences and structure information of new genes and repeats were predicted, which greatly fills the gaps of genomics study on giant panda. In addition, the nine sequences assembled based on traditional phrap methods provided as a validation resource for the de novo assembly accuracy of the whole genome shotgun sequencing reads of giant panda generated by the Illumina GA sequencing technology. This study is reported in Volumn 53 (Januray, 2010) of SCIENCE CHINA Life Sciences because of its significant research value.

Giant panda (Ailuropoda melanoleuca), known as the "Chinese treasure", is one of the most endangered species in the world. A survey revealed that only about 2500~3000 individuals remain in the wild. Its dietary specialization, habitat isolation, and reproductive constraints have led to a perception that this is a species at an "evolutionary dead end". In recent years, strenuous efforts have been made to study and protect this animal. Considerable knowledge of its physiology, biochemistry, genetic diversity and ecology has been gathered.

MHC II genomic region and mitochondrial sequence of giant panda were sequenced and annotated. Phylogenic tree was generated with mitochondrial sequences of giant panda and other bear speices, suggesting that giant panda belongs to the species of Usrides. Genome diversities of giant panda were also explored, suggesting that giant panda is not a species at an evolutionary "dead end". Conservation strategies should focus on the restoration and protection of wild habitat and the maintenance of the substantial regional genetic diversity.

In this work, we sequenced and assembled nine BACs of giant panda, about a genomic region of 878 kb, which greatly fills the gaps of genomic study on giant panda. Twelve protein coding genes were predicted, seven of which could be functionally annotated. About 27 percent of the BAC sequence was predicted to be composed of repeats. A phylogenetic tree was constructed across five species, including giant panda, human, dog, cat and mouse, which reconfirms dog as the most related species to giant panada.

With the detailed sequence information provided, further studies should be carried out on interested genes of giant panda to get deeper understanding of this species. Our data is a preview of the giant panda genome. The whole genome sequence of giant panda has been released and the research article has been published on Nature recently. The assembled sequences of these nine BACs were used as a validation resource for accuracy assessment of the assembly of the whole genome sequencing reads based on new Illumina GA sequencing technology.

All these studies greatly accelerate the genomics studies on giant panda which supports the discovery of fundamental molecular biology knowledge to guide the protection of the endangered animal giant panda.


'/>"/>

Contact: Y. Zheng
zhengyang@genomics.org.cn
86-755-252-74032
Science in China Press
Source:Eurekalert

Related biology news :

1. Covering the bases: Quantum effect may hold promise for low-cost DNA sequencing, sensor applications
2. Biologist enhances use of bioinformatic tools and achieves precision in genetic annotation
3. Genomatix gets patent for comparative genomics method
4. Special issue Comparative Cognition in Context now published
5. Comparative genomics reveals molecular evolution of Q fever pathogen
6. Genomatix gives a hand in the analysis of Wayne States sequencing projects
7. Genome analysis of marine microbe reveals a metabolic minimalist
8. High-throughput analysis of gene regulation, DNA synthesis in Cold Spring Harbor Protocols
9. ARS genetic analysis helps spot sugarcane rusts
10. A forensic analysis of Hurricane Katrinas impact: methods and findings
11. Genetic analysis helps dissect molecular basis of cardiovascular disease
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:4/13/2016)... April 13, 2016  IMPOWER physicians supporting Medicaid patients ... a new clinical standard in telehealth thanks to a ... the higi platform, IMPOWER patients can routinely track key ... body mass index, and, when they opt in, share ... visit to a local retail location at no cost. ...
(Date:3/29/2016)... LegacyXChange, Inc. (OTC: LEGX ... Protect are pleased to announce our successful effort to ... of writing instruments, ensuring athletes signatures against counterfeiting and ... athletes on LegacyXChange will be assured of ongoing proof ... Bill Bollander , CEO states, "By inserting ...
(Date:3/22/2016)... and SANDY, Utah , ... which operates the highest sample volume laboratory in ... Genomics and UNIConnect, leaders in clinical sequencing informatics and ... launch of a project to establish the informatics infrastructure ... NSO has been contracted by the Ontario ...
Breaking Biology News(10 mins):
(Date:5/3/2016)... ... May 03, 2016 , ... Flagship Biosciences, the leader in ... its Board of Directors. Dr. Gillett recently retired from Charles River Laboratories (CRL), ... Chief Scientific Officer. A board-certified veterinary pathologist, Dr. Gillett joined Charles River in ...
(Date:5/3/2016)... (PRWEB) , ... May 03, 2016 , ... According to ... , for definitive prostate cancer treatment, patients traditionally had two main treatment options: surgery ... plan would be made. , New technology has enabled doctors to administer higher ...
(Date:5/2/2016)... PHILADELPHIA, PA (PRWEB) , ... May 02, 2016 ... ... is proud to report on the pre-launch success of their revolutionary, veterinarian-designed product ... allowing cats to stalk, trap, and play with their food the way nature ...
(Date:4/29/2016)... CO (PRWEB) , ... April 29, 2016 , ... ... addressing the necessary fundamentals to transform technology into a viable company, CereScan’s CEO, ... growth. Mr. Kelley, a recognized leader and mentor in the Denver area ...
Breaking Biology Technology: