Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene

PCR-denaturing gradient gel electrophoresis (DGGE) was used to determine diversity and community of endophytic actinomycetes distributed within the roots of Aquilaria crassna Pierre ex Lec (eaglewood). DNA was extracted from plant roots collected from one plantation in Nakhonnayok province and three...

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Main Authors: Pongrawee Nimnoi, Neelawan Pongsilp, Saisamorn Lumyong
Format: Journal
Published: 2018
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http://cmuir.cmu.ac.th/jspui/handle/6653943832/50447
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spelling th-cmuir.6653943832-504472018-09-04T04:42:15Z Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene Pongrawee Nimnoi Neelawan Pongsilp Saisamorn Lumyong Agricultural and Biological Sciences Biochemistry, Genetics and Molecular Biology PCR-denaturing gradient gel electrophoresis (DGGE) was used to determine diversity and community of endophytic actinomycetes distributed within the roots of Aquilaria crassna Pierre ex Lec (eaglewood). DNA was extracted from plant roots collected from one plantation in Nakhonnayok province and three plantations in Phetchabun province of Thailand. A nested-PCR was used to specifically amplify all actinobacterial groups. PCR-DGGE analysis of a variable region 3 (V3) of 16S rDNA confirmed the presence of endophytic actinomycetes in genera Nocardia, Pseudonocardia, Streptomyces and Actinomadura within the roots of eaglewood from Phetchabun province. Actinomycetes in genera Nocardia, Nonomuraea, Pseudonocardia and Actinomadura were found to inhabit abundantly in the roots of eaglewood from Nakhonnayok province. Actinobacterial community structures within the roots of this plant grown in two provinces were different from each other based on the generated dendrogram and Sorensen's index. These results suggest that different locations resulted in different endophytic actinomycetes communities within the plant. Besides actinobacterial community structure, genetic diversity was analyzed based on species diversity and simple index. DGGE exhibited many species of actinomycetes inhabited as endophytes. The highest diversity of endophytic actinomycetes was found in the roots from a plantation in Nakhonnayok province and one of the plantations in Phetchabun province. This is the first report of the ecology and the community of endophytic actinomycetes colonized and imbedded within the roots of eaglewood plant. © 2010 Elsevier Ltd. 2018-09-04T04:41:08Z 2018-09-04T04:41:08Z 2010-08-01 Journal 03051978 2-s2.0-77958496541 10.1016/j.bse.2010.07.005 https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=77958496541&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/50447
institution Chiang Mai University
building Chiang Mai University Library
country Thailand
collection CMU Intellectual Repository
topic Agricultural and Biological Sciences
Biochemistry, Genetics and Molecular Biology
spellingShingle Agricultural and Biological Sciences
Biochemistry, Genetics and Molecular Biology
Pongrawee Nimnoi
Neelawan Pongsilp
Saisamorn Lumyong
Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene
description PCR-denaturing gradient gel electrophoresis (DGGE) was used to determine diversity and community of endophytic actinomycetes distributed within the roots of Aquilaria crassna Pierre ex Lec (eaglewood). DNA was extracted from plant roots collected from one plantation in Nakhonnayok province and three plantations in Phetchabun province of Thailand. A nested-PCR was used to specifically amplify all actinobacterial groups. PCR-DGGE analysis of a variable region 3 (V3) of 16S rDNA confirmed the presence of endophytic actinomycetes in genera Nocardia, Pseudonocardia, Streptomyces and Actinomadura within the roots of eaglewood from Phetchabun province. Actinomycetes in genera Nocardia, Nonomuraea, Pseudonocardia and Actinomadura were found to inhabit abundantly in the roots of eaglewood from Nakhonnayok province. Actinobacterial community structures within the roots of this plant grown in two provinces were different from each other based on the generated dendrogram and Sorensen's index. These results suggest that different locations resulted in different endophytic actinomycetes communities within the plant. Besides actinobacterial community structure, genetic diversity was analyzed based on species diversity and simple index. DGGE exhibited many species of actinomycetes inhabited as endophytes. The highest diversity of endophytic actinomycetes was found in the roots from a plantation in Nakhonnayok province and one of the plantations in Phetchabun province. This is the first report of the ecology and the community of endophytic actinomycetes colonized and imbedded within the roots of eaglewood plant. © 2010 Elsevier Ltd.
format Journal
author Pongrawee Nimnoi
Neelawan Pongsilp
Saisamorn Lumyong
author_facet Pongrawee Nimnoi
Neelawan Pongsilp
Saisamorn Lumyong
author_sort Pongrawee Nimnoi
title Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene
title_short Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene
title_full Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene
title_fullStr Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene
title_full_unstemmed Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by Actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene
title_sort genetic diversity and community of endophytic actinomycetes within the roots of aquilaria crassna pierre ex lec assessed by actinomycetes-specific pcr and pcr-dgge of 16s rrna gene
publishDate 2018
url https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=77958496541&origin=inward
http://cmuir.cmu.ac.th/jspui/handle/6653943832/50447
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