Hi everyone,
I am considering generating full and good quality mitochondrial genomes for different species of vertebrates and non-vertebrates. By doing so, I would like to balance between an optimal quality of the genomes, and a reduced cost and time. I assume that it is possible to recover the mitogenomes from most genome wide sequencing approaches, but I would like to know if one is more efficient than the others.
Best - Thierry
If there is no good reference for your genomes, it would be better to sequence using long-read sequencing technologies, which tends to make the assembly process easier. Take a look at the Oxford Nanopore sequencing, which is cheap and able to generate very long reads in a short run time.
Mitochondrial metagenomics: letting the genes out of the bottle
- Alex Crampton-Platt,
- Douglas W. Yu,
- Xin Zhou and
- Alfried P. Vogler
https://gigascience.biomedcentral.com/articles/10.1186/s13742-016-0120-y
Hi Thierry,
Here are two references that our lab is following for non model organisms:
TILAK, M. K., F. JUSTY, M. DEBIAIS-THIBAUD, F. BOTERO-CASTRO, F. DELSUC, AND E. J. P. DOUZERY. 2015. A cost-effective straightforward protocol for shotgun Illumina librariesdesigned to assemble complete mitogenomes from non-model species. Conservation Genetics
Resources 7:37–40.
MARICIC, T., M. WHITTEN, AND S. PÄÄBO. 2010. Multiplexed DNA sequence capture of mitochondrial genomes using PCR products. PLoS One 5:e14004.
Good luck!
- Badges
- Science topic
- Similar topics
- Biological Science
- Zoology
- Ichthyology
- Vertebrates