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Table 3 Phylotypes detected by LDR versus results from cloning and sequencing.

From: Universal ligation-detection-reaction microarray applied for compost microbes

 

A26

A29

A45

A50

A52

A53

A54

A55

A56

A57

A58

A65

A66

A67

A83

A84

A85

A86

NK19 clone

 

X

     

X

          

NK19 20 ng

 

X

     

X

          

NK19 4 ng

 

X

     

X

          

NK19 genomic

                  

NK14b clone

    

X

  

X

   

X

X

     

NK14b 20 ng

 

X

  

X

 

X

X

  

X

X

X

   

X

 

NK14b 4 ng

    

X

  

X

   

X

X

     

14b genomic

          

X

 

X

 

X

   

NK14a clone

    

X

  

X

   

X

X

     

NK14a 20 ng

 

X

  

X

 

X

X

   

X

X

   

X

 

NK14a 4 ng

 

X

  

X

  

X

   

X

X

     

NK14A genomic

X

                 

NK12 clone

    

X

 

X

X

    

X

   

X

 

NK12 20 ng

    

X

 

X

X

    

X

   

X

 

NK12 4 ng

    

X

 

X

X

    

X

     

NK12 genomic

                  

NK10 clone

  

X

 

X

         

X

X

  

NK10 20 ng

  

X

 

X

             

NK10 4 ng

  

X

 

X

             

NK10 genomic

   

X

X

         

X

   

NK09 clone

    

X

         

X

   

NK09 20 ng

    

X

             

NK09 4 ng

    

X

         

X

   

NK09 genomic

            

X

     

NK8 20 ng

X

X

 

X

 

X

            

NK8 4ng

 

X

    

X

           

NK8 genomic

                  

NK7 clone

  

X

 

X

             

NK7 20 ng

X

 

X

 

X

             

NK07 4 ng

  

X

               

NK07 genomic

X

 

X

 

X

             

NK06 clone

  

X

 

X

             

NK06 20 ng

  

X

 

X

             

NK06 4 ng

  

X

 

X

             

NK06 genomic

         

X

        

NK5 20 ng

    

X

         

X

   

NK5 4 ng

    

X

             

NK5 genomic

                  
  1. Different concentration of DNA was used in hybridisation (y-axis). Hybridisation with 20 ng of PCR amplified internal transcribed spacer (ITS) area DNA was done in triplicate and when two out of three replicates were positive, the phylotype was marked present. 4 ng was hybridised once. In addition, 10 mg of genomic DNA from environmental sample was used. All of the probes (x-axis) were used in the hybridisation. For phylotype information corresponding to each zip-code, see table 1.
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BMC Microbiology

ISSN: 1471-2180

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