2006
DOI: 10.1007/s00572-006-0067-4
|View full text |Cite
|
Sign up to set email alerts
|

Rationalizing molecular analysis of field-collected roots for assessing diversity of arbuscular mycorrhizal fungi: to pool, or not to pool, that is the question

Abstract: For rationalizing molecular analysis of field-collected roots in diversity studies on arbuscular mycorrhiza, we compared three different approaches. After DNA extraction from 50 root samples of Plantago lanceolata grown on monoculture plots at a former arable field site, (1) DNAs were amplified separately by nested PCR and each amplicon was cloned separately; (2) DNAs were amplified separately by nested PCR, 1 mul of each amplicon was pooled, and a single cloning was made from the resulting amplicons mix; and … Show more

Help me understand this report

Search citation statements

Order By: Relevance

Paper Sections

Select...
2
1
1

Citation Types

0
30
0

Year Published

2008
2008
2021
2021

Publication Types

Select...
6
2

Relationship

0
8

Authors

Journals

citations
Cited by 46 publications
(30 citation statements)
references
References 31 publications
0
30
0
Order By: Relevance
“…Extraction of DNA from roots is only an accurate measure of the root subsample, while the minute mass of soils extracted likely excludes numerous species that are present in the composite soil sample from which the subsample was removed. Further, many methodological biases can be introduced in DNA isolation and amplification from root and soil samples (Renker et al 2006). To minimize these biases, we chose to focus on isolating DNA from multiple individual host plants (one PCR amplification per DNA extraction), rather than pooling multiple PCR amplifications from fewer replicate samples.…”
Section: Discussionmentioning
confidence: 99%
“…Extraction of DNA from roots is only an accurate measure of the root subsample, while the minute mass of soils extracted likely excludes numerous species that are present in the composite soil sample from which the subsample was removed. Further, many methodological biases can be introduced in DNA isolation and amplification from root and soil samples (Renker et al 2006). To minimize these biases, we chose to focus on isolating DNA from multiple individual host plants (one PCR amplification per DNA extraction), rather than pooling multiple PCR amplifications from fewer replicate samples.…”
Section: Discussionmentioning
confidence: 99%
“…Therefore, in the current study, a total of 6 samples were collected, based on consideration of the number of previous conditions and analytical effort. Renker et al (2006) showed that when the DNA was extracted from a pool of 50 roots, fewer AM species were detected. When the DNA was prepared by extraction from each 50 roots separately, the number of detected species increased.…”
Section: Discussionmentioning
confidence: 99%
“…Furthermore, the current status of the sampling effort was analyzed by rarefaction analysis using the free Analytic Rarefaction software program (http://strata. uga.edu/software/Software.html) (Renker et al 2006, Simberloff 1978.…”
Section: Multivariate Statistical Analysis and Rarefaction Analysismentioning
confidence: 99%
“…For example, when the AM fungal community colonising roots in a grassland was investigated using phylogenetic analysis, there was not a close correspondence with the morphotypes of AM fungi (Schnoor et al 2011a). Furthermore, it has been shown that the treatment of root samples can influence conclusions related to AM fungal analysis (Renker et al 2006). Molecular methods generally yield more information and have greater taxonomic resolution; however, assigning taxonomic affiliation is complicated by the fact that AM fungi reproduce asexually leading to higher diversity within species (Munkvold et al 2004;Stockinger et al 2009).…”
Section: Am Fungal Diversity and Analytical Methodsmentioning
confidence: 99%