Allozyme Diversity in the Tetraploid Endemic Thymus loscosii (Lamiaceae)

López‐Pujol, Jordi; Bosch, María; Simon, Joan; Blanché, Cèsar

doi:10.1093/aob/mch039

Cited by 57 publications

(40 citation statements)

References 17 publications

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“…There has been increasing interest in investigating genetic diversity and population genetic structure of autotetraploid species for understanding evolutionary impacts of polyploidy and the conservation biology of the species (Brown and Young 2000;Mahy et al 2000;Hardy and Vekemans 2001;Lopez-Pujol et al 2004). This has been greatly promoted by the increasing availability of allozyme and PCR-based DNA molecular marker data in these populations.…”

Section: Discussionmentioning

confidence: 99%

“…However, analysis of the fast growing data sets of DNA polymorphic markers raises challenges to the development of appropriate statistical methods and algorithms. The data sets have been analyzed by empirically inferring individual genotype from the intensity of gel bands (Soltis and Soltis 1989;Wendel and Weeden 1989;Lopez-Pujol et al 2004). It is well known that this will be either inaccurate or unfeasible for most PCR-based DNA markers.…”

Section: Discussionmentioning

confidence: 99%

“…For their significance in evolutionary biology and agriculture, autopolyploids have attracted increasing research efforts at both theoretical and experimental scales (Ronfort et al 1998;Luo et al 2000Luo et al , 2001Mahy et al 2000;Lopez-Pujol et al 2004). Furthermore, rapid advances in the techniques of molecular biology and computer technology have made the genetical analysis of autopolyploids more tractable than ever before (De Winton and Haldane 1931;Fisher 1947).…”

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confidence: 99%

“…Furthermore, rapid advances in the techniques of molecular biology and computer technology have made the genetical analysis of autopolyploids more tractable than ever before (De Winton and Haldane 1931;Fisher 1947). Allozyme and DNA-based microsatellite markers have been used to investigate the divergent heterozygosity between autotetraploids and their parental diploids (Mahy et al 2000;Hardy and Vekemans 2001), to infer the genetic mode of autopolyploidy (Lopez-Pujol et al 2004), and to assess population structure and gene flow in autotetraploid species (Ronfort et al 1998). Thrall and Young (2000) developed a computer program, AUTOTET, for calculating allele frequencies of genetic markers in autotetraploid populations.…”

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Modeling Population Genetic Data in Autotetraploid Species

Luo

Zhang

et al. 2006

Genetics

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Allozyme and PCR-based molecular markers have been widely used to investigate genetic diversity and population genetic structure in autotetraploid species. However, an empirical but inaccurate approach was often used to infer marker genotype from the pattern and intensity of gel bands. Obviously, this introduces serious errors in prediction of the marker genotypes and severely biases the data analysis. This article developed a theoretical model to characterize genetic segregation of alleles at genetic marker loci in autotetraploid populations and a novel likelihood-based method to estimate the model parameters. The model properly accounts for segregation complexities due to multiple alleles and double reduction at autotetrasomic loci in natural populations, and the method takes appropriate account of incomplete marker phenotype information with respect to genotype due to multiple-dosage allele segregation at marker loci in tetraploids. The theoretical analyses were validated by making use of a computer simulation study and their utility is demonstrated by analyzing microsatellite marker data collected from two populations of sycamore maple (Acer pseudoplatanus L.), an economically important autotetraploid tree species. Numerical analyses based on simulation data indicate that the model parameters can be adequately estimated and double reduction is detected with good power using reasonable sample size.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

mentioning

confidence: 99%

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confidence: 99%

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Modeling Population Genetic Data in Autotetraploid Species

Luo

Zhang

et al. 2006

Genetics

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“…Because of their importance to agriculture, there has been much scientific investigation of plant autopolyploids (López-Pujol et al, 2004;Luo et al, 2006). In addition, autopolyploids do not exhibit disomic inheritance, whereas allopolyploids do so because of minor differences between chromosomes originating from different species (Luo et al, 2006).…”

Section: Introductionmentioning

confidence: 99%

A maximum-likelihood estimation of pairwise relatedness for autopolyploids

et al. 2014

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Relatedness between individuals is central to ecological genetics. Multiple methods are available to quantify relatedness from molecular data, including method-of-moment and maximum-likelihood estimators. We describe a maximum-likelihood estimator for autopolyploids, and quantify its statistical performance under a range of biologically relevant conditions. The statistical performances of five additional polyploid estimators of relatedness were also quantified under identical conditions. When comparing truncated estimators, the maximum-likelihood estimator exhibited lower root mean square error under some conditions and was more biased for non-relatives, especially when the number of alleles per loci was low. However, even under these conditions, this bias was reduced to be statistically insignificant with more robust genetic sampling. We also considered ambiguity in polyploid heterozygote genotyping and developed a weighting methodology for candidate genotypes. The statistical performances of three polyploid estimators under both ideal and actual conditions (including inbreeding and double reduction) were compared. The software package POLYRELATEDNESS is available to perform this estimation and supports a maximum ploidy of eight.

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Variation in Phytochemical, Morphological, and Ploidy Levels of Iranian Thymus Species

Tohidi

Rahimmalek

Arzani

2021

Chemistry & Biodiversity

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Thymus is one of the most important genera of the Lamiaceae family. This work was performed to assess inter and intra species variation, which is an indispensable prerequisite for the selection and the exploitation of the germplasm, using yield, secondary metabolites, and ploidy level criteria. Nineteen Iranian populations belonging to 11 Thymus species which includes T. vulgaris were used in this study. The results of cytological observations on the 19 populations revealed the three root‐tip chromosome numbers of 2n=2x=30, 2n=4x=56 or 60 (diploid and tetraploid). This study also presents the results of a two‐year field experiment that evaluates the agronomic and morphology of the 19 populations of Thymus spp. Cluster analysis grouped the populations into six groups and explained the relationships among ploidy levels, morphological traits, and essential oils (EOs). In general, diploid species belonged to the thymol chemotype, whilst carvacrol chemotype consistently dependent on the gene‐dosage effect. Thymus migricus, T. daenensis‐2, T. serpyllum, and T. trautvetteri populations with diverse thymol background were the best selection as the parents to improve thymol in a breeding program. Moreover, dry and fresh weight criteria can be used to improve EO content in thyme. Achieving this goal would be expected by crossing T. migricus and T. daenensis‐2. Finally, providing relevant information on the ploidy level of Thymus species, with emphasis on morphology and EO components variations, may be recommended for the selection of populations or species to improve bioactive components as well as morphological traits in future breeding programs.

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Allozyme Diversity in the Tetraploid Endemic Thymus loscosii (Lamiaceae)

Cited by 57 publications

References 17 publications

Modeling Population Genetic Data in Autotetraploid Species

Modeling Population Genetic Data in Autotetraploid Species

A maximum-likelihood estimation of pairwise relatedness for autopolyploids

Variation in Phytochemical, Morphological, and Ploidy Levels of Iranian Thymus Species

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