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Title 

Principal component analysis and discriminant analysis (PCA-DA) for discriminating profiles of terminal restriction fragment length polymorphism (T-RFLP) in soil bacterial communities

Authors 

S ParkY K KuM J SeoDo Young KimJ E YeonK M LeeSoon Chun JeongWoon Kee YoonC H HarnHwan Mook Kim

Publisher 

Elsevier

Issue Date 

2006

Citation 

Soil Biology & Biochemistry, vol. 38, no. 8, pp. 2344-2349

Keywords 

bacterial communitycitrullus vulgaris [Twinser] cv. gongdaediscriminant analysisPCArhizosphereT-RFLPtransgenic watermelonenvironmental impactprincipal component analysisrisk assessment

Abstract 

To assess the impact of a transgenic crop on soil environment, we compared soil bacterial communities from the rhizospheres of cucumber green mottle mosaic virus (CGMMV)-resistant transgenic watermelon (Citrullus vulgaris [Twinser] cv. Gongdae) and non-transgenic parental line watermelon at an experimental farm in Miryang, Korea. Soil microbial community structure was studied using terminal restriction fragment length polymorphism (T-RFLP) using HaeIII and HhaI enzymes on products from polymerase chain amplification reactions (PCR) of total DNA from rhizosphere. We used principal component analyses (PCA) to reduce dimensionality of T-RFLP profiles before comparison. On these PCA scores, we conducted discrimination analyses to compare soil microbial communities from the rhizosphere of transgenic and non-transgenic. Discriminant analyses indicate that microbial communities from rhizosphere of transgenic and non-transgenic watermelon did not differ with significance at 95% level. Our study could be used as a model case to assess the environmental risk assessment of transgenic crops on soil microbial organisms.

ISSN 

0038-0717

Link 

http://dx.doi.org/10.1016/j.soilbio.2006.02.019

Appears in Collections

1. Journal Articles > Journal Articles

Registered Date

2019-05-02


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