AFLP analysis of genetic variability in New Guinea impatiens

Carr, Jason; Xu, Ming; Dudley, J. W.; Korban, Schuyler S.

doi:10.1007/s00122-003-1210-7

Cited by 25 publications

(22 citation statements)

References 27 publications

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“…Lyerly, unpublished data). Generally, these studies show that genetic marker data agree with available pedigree data (Carr et al, 2003).…”

supporting

confidence: 58%

“…Other AFLP studies (Carr et al, 2003;Han et al, 2000) have focused on scoring a large number of polymorphisms to explain expected relatedness. However, this study shows that it is the quality as well as quantity of information that the polymorphisms contain, and not the quantity of polymorphisms themselves, which explains relationships and creates AFLP fi ngerprints.…”

Section: Discussionmentioning

confidence: 99%

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Evaluation of AFLP in Poinsettia: Polymorphism Selection, Analysis, and Cultivar Identification

Parks¹,

Moyer²

2004

jashs

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ADDITIONAL INDEX WORDS. DNA, fl oral crop, intracultivar variation, fi ngerprinting, genetic analysis, molecular differentiation ABSTRACT. Fingerprinting using molecular markers is a highly effective method of cultivar identifi cation that is a powerful aid to traditional methods based on morphology. Amplifi ed fragment length polymorphism (AFLP) is a robust and reliable method for generating molecular markers that has been used to evaluate many crops for a variety of applications. In this study, AFLP was used to develop and validate robust genetic fi ngerprints for poinsettia (Euphorbia pulcherrima Willd. ex Klotzch) cultivars. Polymorphism selection was completed to facilitate the identifi cation of useful polymorphisms and minimize future fi ngerprinting costs and time. Poinsettia is a highly variable crop subject to genetic drift and variable cultivars. Validation of polymorphisms to remove those associated with intracultivar variation improved the reliability of the fi ngerprinting. The result was a poinsettia AFLP database that defi nes the genetic fi ngerprints of 104 cultivars. Cluster analysis illustrated differentiation of most poinsettia cultivars tested. Selection of a subset of AFLP polymorphisms resulted in clustering of cultivars according to known origin and breeding program. This method has applications not only for cultivar identifi cation for cultivar protection, and maintenance of cultivar uniformity, but also has the potential application of developing markers for important traits.

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“…Lyerly, unpublished data). Generally, these studies show that genetic marker data agree with available pedigree data (Carr et al, 2003).…”

supporting

confidence: 58%

Section: Discussionmentioning

confidence: 99%

Evaluation of AFLP in Poinsettia: Polymorphism Selection, Analysis, and Cultivar Identification

Parks¹,

Moyer²

2004

jashs

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“…In recent years DNA markers have provided the tools needed to do this (Tomkins et al 2001). The multilocus amplified fragment length polymorphism (AFLP) DNA fingerprinting technique (Vos et al 1995) has been widely used to study genetic relationships within and among many different plant species (Hill et al 1996;Maughan et al 1996;Sharma et al 1996;Hongtrakul et al 1997;Paul et al 1997;Cervera et al 1998;Angiolillo et al 1999;Barcaccia et al 1999;Leus et al 2000;Tomkins et al 2001;Van Huylenbroeck et al 2001;Carr et al 2003).…”

Section: Introductionmentioning

confidence: 99%

Amplified fragment length polymorphism for genetic diversity assessment in globe artichoke

et al. 2004

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Globe artichoke ( Cynara cardunculus L. var. scolymus L.) is a diploid (2 n=2 x=34), predominantly cross-pollinated plant native to the Mediterranean basin, and Italy contains the richest primary cultivated 'gene pool'. Commercial production is mainly based on perennial cultivation of vegetatively propagated clones that are highly heterozygous and segregate widely when progeny-tested. Analysis of the artichoke genome by means of molecular markers has been limited to a few studies; here we report on the genetic relatedness among 118 artichoke accessions, including clones belonging to the same varietal type, two accessions of cultivated cardoon ( C. cardunculus L. var. altilis DC.) and four accessions of wild cardoon [ C. cardunculus L. var. sylvestris (Lamk) Fiori] as measured by amplified fragment length polymorphism (AFLP). Eight primer combinations yielded a total of 667 bands, of which 519 were polymorphic. Genetic similarities among accessions were calculated according to Jaccard's Similarity Index and used to construct a dendrogram based on the unweighted pair group method using arithmetic averages. Our results demonstrate that AFLP markers can be useful in evaluating Cynara cardunculus genetic diversity and in classifying accessions to phylogenetic groups based on their genetic similarity values. Genetic variation among artichoke clones belonging to the same varietal type was in some cases higher than that found among accessions differently named and coming from different areas. The lowest Jaccard's Similarity Index found within a varietal type can be considered as a threshold for the identification of accessions which share an analogous genetic background. This will enable the selection of representatives in order to develop and manage a germplasm 'core collection' as well as the identification of suitable material for future artichoke breeding efforts.

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“…We can also rule out (ii) as a causal factor because we strictly bagged all the panicles of Jijing88 after emasculation and grew all the plants in an isolated greenhouse. Moreover, seed or pollen contamination would be a 100 and 50 % contamination, respectively, for the polymorphic loci between Jijing88 and the contaminator; both Simple Sequence Repeats (SSR) and Amplified Fragment Length Polymorphisms (AFLP) molecular marker (Carr et al 2003) analysis revealed no evidence of this (primers listed in Tables S5, S6). In addition, whole-genome resequencing revealed that none of the 202 retrotransposon loci were missing in X9 when compared to Jijing88.…”

Section: Pollination By Zizania As the Underlying Cause For The Mobilmentioning

confidence: 99%

Mobilization of Diverse Transposable Elements in Rice Induced by Alien Pollination Without Entailing Genetic Introgression

Sun

Wang

et al. 2014

Plant Mol Biol Rep

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Transposable elements (TEs) are major components of eukaryotic genomes and have played important roles in genome evolution. Plant introgressive hybridization is widespread in nature and may induce a wide range of genetic and epigenetic variations including reactivation of dormant TEs. Newly elicited TE transpositions may lead to heritable expression alteration in genes adjacent to excision and insertion sites and consequently to phenotypic novelty. Prior studies showed that distant hybridization between sexually incompatible plant species might cause reactivation of TEs. However, these studies used plants with confirmed alien genetic introgression, so it remains unclear whether the cause of TE activation is introgression or the alien pollination process itself. We pollinated rice stigma (Oryza sativa L., cv. Jijing88) with Zizania latifolia pollen. Immediate offspring and subsequent generations were self-fertilized. We conducted wholegenome resequencing on a derivative line that showed heritable phenotypic variations in plant height and grain characteristics. No genetic introgression from the pollen donor was observed, but transpositional reactivation of otherwise quiescent rice endogenous TEs was detected. In total, 33 de novo mobilization events occurred involving 13 TEs, namely a MITE mPing, Pong (the transposase-donor of mPing), and 11 LTR retrotransposons. Transpositions were verified by locus-specific polymerase chain reaction amplification and Southern analysis. Gene expression analysis suggested that at least some of the mobilized TEs caused heritable expression changes in neighboring genes, including genes that mapped to quantitative trait loci (QTLs) associated with grain weight and size. Thus, pollination by Zizania without entailing introgression can induce mobilization of endogenous TEs and cause heritable gene expression alterations. Our results suggest that pollination by related but sexually incompatible species may generate genetic and phenotypic novelty via modifications induced by enhanced mobility of TEs.

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AFLP analysis of genetic variability in New Guinea impatiens

Cited by 25 publications

References 27 publications

Evaluation of AFLP in Poinsettia: Polymorphism Selection, Analysis, and Cultivar Identification

Evaluation of AFLP in Poinsettia: Polymorphism Selection, Analysis, and Cultivar Identification

Amplified fragment length polymorphism for genetic diversity assessment in globe artichoke

Mobilization of Diverse Transposable Elements in Rice Induced by Alien Pollination Without Entailing Genetic Introgression

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