Silver stained polyacrylamide gels and fluorescence-based automated capillary electrophoresis for detection of amplified fragment length polymorphism patterns obtained from white-rot fungi in the genus Trametes

Dresler-Nurmi, Aneta; Terefework, Zewdu; Kaijalainen, Seppo; Lindström, Kristina; Hatakka, Annele

doi:10.1016/s0167-7012(00)00153-6

Cited by 22 publications

(11 citation statements)

References 31 publications

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“…AFLP fingerprinting was then performed according to the standard procedure (Vos et al. 1995) with slight modifications as described in Dresler‐Nurmi et al. (2000).…”

Section: Methodsmentioning

confidence: 99%

Galega orientalis is more diverse than Galega officinalis in Caucasus-whole-genome AFLP analysis and phylogenetics of symbiosis-related genes

et al. 2011

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Legume plants can obtain combined nitrogen for their growth in an efficient way through symbiosis with specific bacteria. The symbiosis between Rhizobium galegae and its host plant Galega is an interesting case where the plant species G. orientalis and G. officinalis form effective, nitrogen-fixing, symbioses only with the appropriate rhizobial counterpart, R. galegae bv. orientalis and R. galegae bv. officinalis, respectively. The symbiotic properties of nitrogen-fixing rhizobia are well studied, but more information is needed on the properties of the host plants. The Caucasus region in Eurasia has been identified as the gene centre (centre of origin) of G. orientalis, although both G. orientalis and G. officinalis can be found in this region. In this study, the diversity of these two Galega species in Caucasus was investigated to test the hypothesis that in this region G. orientalis is more diverse than G. officinalis. The amplified fragment length polymorphism fingerprinting performed here showed that the populations of G. orientalis and R. galegae bv. orientalis are more diverse than those of G. officinalis and R. galegae bv. officinalis, respectively. These results support the centre of origin status of Caucasus for G. orientalis at a genetic level. Analysis of the symbiosis-related plant genes NORK and Nfr5 reveals remarkable diversity within the Nfr5 sequence, although no evidence of adaptive evolution could be found.

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“…AFLP fingerprinting was then performed according to the standard procedure (Vos et al. 1995) with slight modifications as described in Dresler‐Nurmi et al. (2000).…”

Section: Methodsmentioning

confidence: 99%

Galega orientalis is more diverse than Galega officinalis in Caucasus-whole-genome AFLP analysis and phylogenetics of symbiosis-related genes

et al. 2011

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“…The AFLP procedure was largely based on the procedures described by Vos et al (1995) and Dresler-Nurmi et al (2000). The 25-lL restriction-ligation mixture contained 100-300 ng template DNA, 5 U EcoRI (Promega Corporation, Madison, WI) and Tru1l (MseI; MBI Fermentas), 10 pmol EcoRI, and 20 pmol Tru1l adapters and 1 U T4 DNA ligase in 19 ligase buffer (MBI Fermentas).…”

Section: Aflp Fingerprintingmentioning

confidence: 99%

Biogeography of symbiotic and other endophytic bacteria isolated from medicinal Glycyrrhiza species in China

Sinkko

Montonen

et al. 2011

FEMS Microbiol Ecol

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100

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A total of 159 endophytic bacteria were isolated from surface-sterilized root nodules of wild perennial Glycyrrhiza legumes growing on 40 sites in central and northwestern China. Amplified fragment length polymorphism (AFLP) genomic fingerprinting and sequencing of partial 16S rRNA genes revealed that the collection mainly consisted of Mesorhizobium, Rhizobium, Sinorhizobium, Agrobacterium and Paenibacillus species. Based on symbiotic properties with the legume hosts Glycyrrhiza uralensis and Glycyrrhiza glabra, we divided the nodulating species into true and sporadic symbionts. Five distinct Mesorhizobium groups represented true symbionts of the host plants, the majority of strains inducing N2-fixing nodules. Sporadic symbionts consisted of either species with infrequent occurrence (Rhizobium galegae, Rhizobium leguminosarum) or species with weak (Sinorhizobium meliloti, Rhizobium gallicum) or no N2 fixation ability (Rhizobium giardinii, Rhizobium cellulosilyticum, Phyllobacterium sp.). Multivariate analyses revealed that the host plant species and geographic location explained only a small part (14.4%) of the total variation in bacterial AFLP patterns, with the host plant explaining slightly more (9.9%) than geography (6.9%). However, strains isolated from G. glabra were clearly separated from those from G. uralensis, and strains obtained from central China were well separated from those originating from Xinjiang in the northwest, indicating both host preference and regional endemism.

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“…A multicapillary analyzer (sequencer) allows to separate many complex samples simultaneously. Moreover, the analyst can use a few different fluorescent dyes in comparison to our described technique [7,14,21].…”

Section: Resultsmentioning

confidence: 99%

Capillary electrophoresis with dual laser detection in separation of amplified fragment length polymorphism fragments

Stefanowicz–Hajduk

Filipowicz

Kosiński

et al. 2009

J of Separation Science

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Capillary electrophoresis with dual laser detection in separation of amplified fragment length polymorphism fragmentsWe are presenting the application of CE technique with dual-channel LIF detection for the simultaneous separation of DNA fragments labeled with two different fluorescence dyes. The optimal conditions of the analysis were determined for the separation of amplified fragment length polymorphism (AFLP) fragments labeled with 59-6-carboxyfluorescein (6-FAM) and the DNA size standard labeled with sulfoindocyanine succinimidyl ester (Cy-5). CE equipped with both argon ion and diode lasers is a good alternative for sequencers and might be applied in analyses of PCR products generated by various fingerprinting methods.

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Silver stained polyacrylamide gels and fluorescence-based automated capillary electrophoresis for detection of amplified fragment length polymorphism patterns obtained from white-rot fungi in the genus Trametes

Cited by 22 publications

References 31 publications

Galega orientalis is more diverse than Galega officinalis in Caucasus-whole-genome AFLP analysis and phylogenetics of symbiosis-related genes

Galega orientalis is more diverse than Galega officinalis in Caucasus-whole-genome AFLP analysis and phylogenetics of symbiosis-related genes

Biogeography of symbiotic and other endophytic bacteria isolated from medicinal Glycyrrhiza species in China

Capillary electrophoresis with dual laser detection in separation of amplified fragment length polymorphism fragments

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