Molecular phylogeny of genus Guizotia (Asteraceae) using DNA sequences derived from ITS

Bekele, Endashaw; Geleta, Mulatu; Dagne, Kifle; Jones, A.; Barnes, Ian; Bradman, Neil; Thomas, Mark G.

doi:10.1007/s10722-006-9126-0

Cited by 19 publications

(12 citation statements)

References 15 publications

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“…DNA was extracted from silica gel‐dried young leaves using a modified CTAB procedure as described in Bekele et al (2007) except that 100 mg of fine powder of leaf material was used instead of 300 mg. DNA quality and concentration was measured using a Nanodrop ™ ND‐1000 spectrophotometer (Saveen Werner, Sweden).…”

Section: Methodsmentioning

confidence: 99%

“…Data were scored as 1 for the presence and 0 for the absence of a DNA band for each locus across the 100 individuals. Genetic diversity was calculated based on (1) Shannon diversity index and (2) Nei's unbiased gene diversity with the modification provided by lynch and Milligan (1994), using polymorphic loci only, as described in Geleta et al (2007b). Gene flow was estimated using Wright's (1951) equation as modified by Crow and Aoki (1984).…”

Section: Methodsmentioning

confidence: 99%

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Inter simple sequence repeat (ISSR) based analysis of genetic diversity ofLobelia rhynchopetalum(Campanulaceae)

Geleta

Bryngelsson

2009

Hereditas

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An understanding of the patterns of genetic variation within and among populations of plant species is essential for devising optimum genetic management strategies for their conservation. Here, the inter simple sequence repeat (ISSR) technique was used to study genetic variation of the Afroalpine giant lobelia, Lobelia rhynchopetalum, based on ten populations sampled from Bale and Simen mountains in Ethiopia. The percentage of polymorphic loci across all samples (P(S)) and within population (Pp) was 78% and 27%, respectively. Regardless of a high total genetic variation, the species has quite low variation within populations. All genetic variation analyses revealed higher variation among populations than within populations (G'(ST)= 0.59, G(ST)=0.63, F(ST)=0.58). Analysis of molecular variance (AMOVA) that employed 156 ISSR markers revealed significant variations among populations; among the two mountain systems and among the three altitudinal groups (P < 0.001). The implications of these findings are discussed, especially from conservation point of view.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Inter simple sequence repeat (ISSR) based analysis of genetic diversity ofLobelia rhynchopetalum(Campanulaceae)

Geleta

Bryngelsson

2009

Hereditas

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“…After the frozen samples were milled using a Retsch MM400 shaker (Haan, Germany), DNA was extracted using a modified CTAB procedure, as described in Bekele et al (2007). Individually sampled leaf tissue was placed in 2 ml Eppendorf microcentrifuge tubes and immediately frozen in liquid nitrogen and stored at -80°C until DNA extraction.…”

Section: Dna Extractionmentioning

confidence: 99%

Assigning Brassica microsatellite markers to the nine C-genome chromosomes using Brassica rapa var. trilocularis–B. oleracea var. alboglabra monosomic alien addition lines

et al. 2012

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Brassica rapa var. trilocularis-B. oleracea var. alboglabra monosomic alien addition lines (MAALs) were used to assign simple sequence repeat (SSR) markers to the nine C-genome chromosomes. A total of 64 SSR markers specific to single C-chromosomes were identified. The number of specific markers for each chromosome varied from two (C3) to ten (C4, C7 and C9), where the designation of the chromosomes was according to Cheng et al. (Genome 38:313-319, 1995). Seventeen additional SSRs, which were duplicated on 2-5 C-chromosomes, were also identified. Using the SSR markers assigned to the previously developed eight MAALs and recently obtained aneuploid plants, a new Brassica rapa-B. oleracea var. alboglabra MAAL carrying the alien chromosome C7 was identified and developed. The application of reported genetically mapped SSR markers on the nine MAALs contributed to the determination of the correspondence between numerical C-genome cytological (Cheng et al. in Genome 38:313-319, 1995) and linkage group designations. This correspondence facilitates the integration of C-genome genetic information that has been generated based on the two designation systems and accordingly increases our knowledge about each chromosome. The present study is a significant contribution to genetic linkage analysis of SSR markers and important agronomic traits in B. oleracea and to the potential use of the MAALs in plant breeding.

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“…in Walp. all have contributed to the origin of Guizotia abyssinica (Bekele et al. 2007; Geleta et al.…”

Section: Introductionmentioning

confidence: 99%

Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass.—the development of a library of expressed sequence tags, microsatellite loci, and the sequencing of its chloroplast genome

Dempewolf

Kane

Ostevik

et al. 2010

Molecular Ecology Resources

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We present an EST library, chloroplast genome sequence, and nuclear microsatellite markers that were developed for the semi-domesticated oilseed crop noug (Guizotia abyssinica) from Ethiopia. The EST library consists of 25 711 Sanger reads, assembled into 17 538 contigs and singletons, of which 4781 were functionally annotated using the Arabidopsis Information Resource (TAIR). The age distribution of duplicated genes in the EST library shows evidence of two paleopolyploidizations-a pattern that noug shares with several other species in the Heliantheae tribe (Compositae family). From the EST library, we selected 43 microsatellites and then designed and tested primers for their amplification. The number of microsatellite alleles varied between 2 and 10 (average 4.67), and the average observed and expected heterozygosities were 0.49 and 0.54, respectively. The chloroplast genome was sequenced de novo using Illumina's sequencing technology and completed with traditional Sanger sequencing. No large re-arrangements were found between the noug and sunflower chloroplast genomes, but 1.4% of sites have indels and 1.8% show sequence divergence between the two species. We identified 34 tRNAs, 4 rRNA sequences, and 80 coding sequences, including one region (trnH-psbA) with 15% sequence divergence between noug and sunflower that may be particularly useful for phylogeographic studies in noug and its wild relatives.

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Molecular phylogeny of genus Guizotia (Asteraceae) using DNA sequences derived from ITS

Cited by 19 publications

References 15 publications

Inter simple sequence repeat (ISSR) based analysis of genetic diversity ofLobelia rhynchopetalum(Campanulaceae)

Inter simple sequence repeat (ISSR) based analysis of genetic diversity ofLobelia rhynchopetalum(Campanulaceae)

Assigning Brassica microsatellite markers to the nine C-genome chromosomes using Brassica rapa var. trilocularis–B. oleracea var. alboglabra monosomic alien addition lines

Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass.—the development of a library of expressed sequence tags, microsatellite loci, and the sequencing of its chloroplast genome

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