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How to deal with the interference between bacterial 16SrDNA and plastid ribosoma


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#1 Ensyeh

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Posted 06 June 2014 - 05:47 AM

I need to quantify Actinobacteria and total Eubacterial community in potato skin. for Actinobacteria it was done by a pair of specific primer that covers actinobacterial 16SrDNA. but for quantification of Eubacteria the interference between bacterial 16SrDNA and plastid ribosomal DNA is a problem. is there any idea? 



#2 bob1

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Posted 07 June 2014 - 01:41 AM

How similar are the plastid and eubacterial sequences?  It may be that you could re-design the primers.



#3 Ensyeh

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Posted 18 June 2014 - 02:48 AM

Hi,

yes thanks, you were right.  several internal primers that could cover only the eubacterial gene were  designed based on a small difference in the middle of the gene.






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