Hello.
I am studying on plant breeding. In my lab, the others usually are performing researches related to molecular biology and genetics. As far as I know, general process of research is studying on pathway in model plants, choosing several genes, searching the information of the genes from other species in the public databases, designing some primers, performing PCR and cloning, inserting into vector and transform to same plant or model plants, and confirming the role of the gene from transformed plant and upload the sequence to the database. However, it takes long time for the transformation process.
Nowadays, I want to analyze the relationship the orthologous genes from several species. For example, A, B, and C are included into the same tribe, but the orthologous proteins are only found in A and B, so I want to know why there is no orthologous protein in C?
In addition, I wonder that it is possible to submit the article by analyzing the relationship between data only from public databases without my own sequence. I think that kind of studies would be many in ecology or evolution area but I can not find the research that is suitable to me.
Can you recommend some fit articles or journals?
Hello Sang, The following tools & analytical methods might be helpful.
PlantOrDB: http://doi.org/10.1186/s12870-015-0531-4
Phylogenomics of plant genomes: https://doi.org/10.1186/1471-2164-9-183
Microbial community: https://doi.org/10.1038/ncomms5405
HOPS Database: http://doi.org/10.1101/gr1305203
Good Luck
One in more general: Article Speciation genetics: Current status and evolving approaches
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