Hello,
I am currently investigating the bacterial community in the gut of a KO mouse model whose phenotype appears to be connected to its gut microbiota. The bacterial gut community of the KO mouse diverges from that of its WT littermates according to 16S data and we are now trying to understand differences in bacterial functional/gene content that may account for the KO phenotype. I performed a trial of shotgun metagenomics for 3 mice of each genotype and sequenced using 454 FLX technology. I now want to perform shotgun metagenomics on 6 additional mice of each genotype, but I was wondering if I could sequence using Illumina HiSeq technology due to its relatively lower cost. Can you provide feedback on the feasibility of using part-454 and part-HiSeq to develop an understanding of the bacterial metagenome? Thanks!
I am currently investigating the bacterial community in the gut of a KO mouse model whose phenotype appears to be connected to its gut microbiota. The bacterial gut community of the KO mouse diverges from that of its WT littermates according to 16S data and we are now trying to understand differences in bacterial functional/gene content that may account for the KO phenotype. I performed a trial of shotgun metagenomics for 3 mice of each genotype and sequenced using 454 FLX technology. I now want to perform shotgun metagenomics on 6 additional mice of each genotype, but I was wondering if I could sequence using Illumina HiSeq technology due to its relatively lower cost. Can you provide feedback on the feasibility of using part-454 and part-HiSeq to develop an understanding of the bacterial metagenome? Thanks!
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