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Hi,
I am interested in getting associated with the resistance of cadmium from the sequences of contigs noted on MG_RAST and recognized for this function genes. the sequence contigs are derived from the de novo assembly of metagenome data contaminated with heavy metals lakes.
I did a BLASTN, using the command: blastn-query with the optional 6-outfmt blasn.out-out, to finally have the array that contains the NCBI id of hits related to the resistence of cadmium.
When I would have the fasta file id NCBI genome sequences, using the blastdbcmd order, I get all the complete genome of organisms that have the genes of interest, but I want to know if there is an option in blastdbcmd command used to extract just the genes involved in CDs or resistence cadmium: CzcA CzcB, Czcc, CzcD.
Thanks,
LaboDer.
I am interested in getting associated with the resistance of cadmium from the sequences of contigs noted on MG_RAST and recognized for this function genes. the sequence contigs are derived from the de novo assembly of metagenome data contaminated with heavy metals lakes.
I did a BLASTN, using the command: blastn-query with the optional 6-outfmt blasn.out-out, to finally have the array that contains the NCBI id of hits related to the resistence of cadmium.
When I would have the fasta file id NCBI genome sequences, using the blastdbcmd order, I get all the complete genome of organisms that have the genes of interest, but I want to know if there is an option in blastdbcmd command used to extract just the genes involved in CDs or resistence cadmium: CzcA CzcB, Czcc, CzcD.
Thanks,
LaboDer.