Estimating genetic diversity of Arabidopsis thaliana ecotypes with amplified fragment length polymorphisms (AFLP)

Erschadi, S.; Haberer, Georg; Schöniger, Michael; Torres-Ruiz, Ramón A.

doi:10.1007/s001220050084

Cited by 35 publications

(30 citation statements)

References 21 publications

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“…AJAS many areas such as gene mapping and tagging (Kliebenstein et al, 2001) characterization of sex, (Flachowsky et al, 2001), analysis of genetic diversity (Erschadi et al, 2000), or genetic relatedness (Mace et al, 1999). DNA based methodologies are now the method of choice to differentiate closely related organisms (Widen et al, 1994).…”

Section: Science Publicationsmentioning

confidence: 99%

GENETIC DIVERSITY OF OKRA (<i>ABELMOSCHUS ESCULENTUS</i> L.) GENOTYPES FROM DIFFERENT AGRO-ECOLOGICAL REGIONS REVEALED BY AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS

Salameh¹

2014

American Journal of Applied Sciences

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This study was carried out to assess the genetic diversity in 48 genotypes and accessions using eight Amplified Fragment Length Polymorphism (AFLP) primer-pairs. The eight selected AFLP primer-pairs generated a total of 150 polymorphic loci. Using the generated AFLP data, the Un-Weighted Pair Group Method with Arithmetic Average (UPGMA) ordered the genotypes into six groups based on Dice similarity coefficient. The range in taxonomic distance was from 0.23 to 1.0. Each cluster was found to have genotypes and accessions from different regions and climate and sometimes different continents. The size range of the loci ranged from 87-662 bp. Great variation between the genotypes and accessions in the different cluster could be of high value as the genetically diverse okra genotypes represent a potentially valuable source for improved pathogen and pest resistance.

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Section: Science Publicationsmentioning

confidence: 99%

GENETIC DIVERSITY OF OKRA (<i>ABELMOSCHUS ESCULENTUS</i> L.) GENOTYPES FROM DIFFERENT AGRO-ECOLOGICAL REGIONS REVEALED BY AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS

Salameh¹

2014

American Journal of Applied Sciences

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“…In most cases, no clear association between geographical origin and genetic similarity was detected in populations distributed in different regions of the world (King et al, 1993;Hanfstingl et al, 1994;Innan et al, 1997;Ullrich et al, 1997;Bergelson et al, 1998;Loridon et al, 1998;Breyne et al, 1999;Miyashita et al, 1999;Erschadi et al, 2000;Jorgensen and Mauricio, 2004;Stenoien et al, 2005;Bakker et al, 2006 Although A. thaliana is present within China and usually distributed in disturbed habitats strongly influenced by human activities, the correlation between its genetic and geographic distance at population level suggests that some natural dispersal mechanism may also be involved in the distribution of this species. This distribution in China is unlike the population distributions in North America, where the populations were possibly originated very recent from a mixed origin (Jorgensen and Mauricio, 2004).…”

Section: The Correlation Of Genetic and Geographic Distancementioning

confidence: 99%

“…The use of this species as a model organism has become increasingly important since the elucidation of its genome sequence (The Arabidopsis Genome Initiative, 2000). In addition to a few well-known ecotypes such as Colombia and Landsberg, which have been cultivated in laboratory conditions for plant physiological, developmental, molecular and functional genomic studies, more and more naturally distributed populations (or ecotypes) have been collected and characterized for their genetic variation (King et al, 1993;Innan et al, 1997;Kuittinen et al, 1997;Ullrich et al, 1997;Bergelson et al, 1998;Loridon et al, 1998;Vos, 1998;Breyne et al, 1999;Miyashita et al, 1999;Erschadi et al, 2000;Sharbel et al, 2000;Barth et al, 2002;Hoffmann et al, 2003;Jorgensen and Mauricio, 2004;Nordborg et al, 2005;Stenoien et al, 2005;Schmid et al, 2006). Understanding the amount and distribution of genetic variation between and among populations is not only crucial for ecological and evolutionary studies, but also serves as a base for functional genomic studies.…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity of the natural populations of Arabidopsis thaliana in China

Kang

Ren

et al. 2007

Heredity

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Although extensive studies have been conducted on the genetic structure of Arabidopsis thaliana (A. thaliana) populations worldwide, the populations from China have never been studied. In this study, we collected 560 individuals from 19 natural populations of A. thaliana distributed in East China along the lower reaches of the Yangtze River, and two populations from northwest China (Xinjiang Province). We adopted two kinds of molecular marker, inter-simple sequence repeats (ISSRs) and random amplified polymorphic DNA (RAPDs) to investigate the genetic diversity within and among populations, and the correlation between the genetic and geographic distances. Thirteen ISSR primers produced 165 polymorphic bands (PPB) (96%) and 11 RAPD primers produced 162 polymorphic bands (98%) in about 560 individuals. The two marker systems generated similar patterns of genetic diversity in these natural populations. The AMOVA analysis indicated about 42-45% of the total genetic variation existed within populations, and found possible geographic structure. The Mantel test revealed a significant correlation between the geographic distance and the genetic distance of these populations in general. A close genetic relationship was found among four populations in the Jiangxi Province, and these always appeared clustered together as a monophyletic group in unweighted pair-group method with arithmetic averages dendrograms based on both ISSR and RAPD data sets. Based on the observation of recolonization and extinction of naturally distributed populations of A. thaliana, and the pattern of their genetic differentiation, the distribution of this species in China might be a result of natural dispersal under the strong influence of human activity.

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“…Mapping of the ENP locus was carried out with CAPS and the complete set of SSLP markers as described (Lukowitz et al, 2000;Haberer et al, 2002) by using F2 laterne plants (genotype pid-15 enp/pid-15 enp, but see below). These had been generated by crosses of pid-15 enp/+ enp with the polymorphic ecotypes Col and Nd (Erschadi et al, 2000). Primers were: 5Ј-GGACGTAGAA-TCTGAGAGCTC-3Ј and 5Ј-GGTCATCCGTTCCCAGGTAAAG-3Ј for G4539 (CAPS marker); and 5Ј-AATTTGGAGATTAGCTGGAAT-3Ј and 5Ј-CCATGTTGATGATAAGCACAA-3Ј for ciw7 (SSLP marker).…”

Section: Genetic Analyses and Mappingmentioning

confidence: 99%

The geneENHANCER OF PINOIDcontrols cotyledon development in theArabidopsisembryo

et al. 2005

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During Arabidopsis embryo development, cotyledon primordia are generated at transition stage from precursor cells that are not derived from the embryonic shoot apical meristem (SAM). To date, it is not known which genes specifically instruct these precursor cells to elaborate cotyledons, nor is the role of auxin in cotyledon development clear. In laternemutants, the cotyledons are precisely deleted, yet the hypocotyl and root are unaffected. The laterne phenotype is caused by a combination of two mutations: one in the PINOID (PID) gene and another mutation in a novel locus designated ENHANCER OF PINOID (ENP). The expression domains of shoot apex organising genes such as SHOOT MERISTEMLESS (STM) extend along the entire apical region of laterne embryos. However, analysis of pid enp stm triple mutants shows that ectopic activity of STM does not appear to cause cotyledon obliteration. This is exclusively caused by enp in concert with pid. In pinoid embryos, reversal of polarity of the PIN1 auxin transport facilitator in the apex is only occasional, explaining irregular auxin maxima in the cotyledon tips. By contrast, polarity of PIN1:GFP is completely reversed to basal position in the epidermal layer of the laterne embryo. Consequently auxin, which is believed to be essential for organ formation, fails to accumulate in the apex. This strongly suggests that ENP specifically regulates cotyledon development through control of PIN1 polarity in concert with PID.

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Estimating genetic diversity of Arabidopsis thaliana ecotypes with amplified fragment length polymorphisms (AFLP)

Cited by 35 publications

References 21 publications

GENETIC DIVERSITY OF OKRA (<i>ABELMOSCHUS ESCULENTUS</i> L.) GENOTYPES FROM DIFFERENT AGRO-ECOLOGICAL REGIONS REVEALED BY AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS

GENETIC DIVERSITY OF OKRA (<i>ABELMOSCHUS ESCULENTUS</i> L.) GENOTYPES FROM DIFFERENT AGRO-ECOLOGICAL REGIONS REVEALED BY AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS

Genetic diversity of the natural populations of Arabidopsis thaliana in China

The geneENHANCER OF PINOIDcontrols cotyledon development in theArabidopsisembryo

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