HE Dong-mei, YAN Zhu-yun, WANG Hai, et al. Screening and Amelioration of DGGE Analysis Conditions for Endophytic Bacteria of Chuanxiong Rhizoma[J]. Chinese journal of experimental traditional medical formulae, 2015, 21(18): 26-30.
DOI:
HE Dong-mei, YAN Zhu-yun, WANG Hai, et al. Screening and Amelioration of DGGE Analysis Conditions for Endophytic Bacteria of Chuanxiong Rhizoma[J]. Chinese journal of experimental traditional medical formulae, 2015, 21(18): 26-30. DOI: 10.13422/j.cnki.syfjx.2015180026.
Screening and Amelioration of DGGE Analysis Conditions for Endophytic Bacteria of Chuanxiong Rhizoma
Objective: To screen available 16S rDNA sequences of endophytic bacteria sampled from Chuanxiong Rhizoma for further denaturing gradient gel electrophoresis (DGGE) analysis
and optimize suitable analysis conditions. Method: In order to get DNA sequences of endophytic bacteria gathered from Chuanxiong Rhizoma
polymerase chain reaction (PCR) and nested PCR experiments have been conducted to the V3 region and the V6-V8 region of 16S rDNA respectively.Vertical electrophoresis has been used to ameliorate degeneration gradient of gels
time interval method has been used to figure out electrophoresis time
in addition
some modification of voltage-time context finally been made according to electrophoretograms. Result: The 16S rDNA V6-V8 region was ideal for DGGE analysis
owing to that it's effective to purify DNA of endophytic bacteria from their host of Chuanxiong Rhizoma
as a result makes it easy to get diverse sequences.These conclusive ideal analysis conditions for this region:gradient range of denaturing agent 55%-70% (Gel 6%)
electrophoresis temperature at 60 ℃
voltage of 50 V
electrophoresis time of 16 h. Conclusion: These DGGE analysis conditions can be useful for distinguishing 16S rDNA V6-V8 sequences of endophytic bacteria of Chuanxiong Rhizoma.This research lays a reliable foundation for further study of exploring endophytic bacterium community structure of Chuanxiong Rhizoma
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