An integrated high-density RFLP-AFLP map of tomato based on  two Lycopersicon esculentum×L. pennellii F2 populations

Haanstra, J.P.W.; Wye, Crispin; Verbakel, Henk; Meijer‐Dekens, Fien; Berg, Petra; Odinot, P.T.; Heusden, A.W. van; Tanksley, Steven D.; Lindhout, P.; Peleman, J.

doi:10.1007/s001220051231

Cited by 123 publications

(84 citation statements)

References 24 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This may be related to the fact that the markers originate from coding regions of the genome, which are mostly present in the euchromatin. Marker clustering within linkage maps is not restricted to gene-based markers, and not uncommon for random DNA-based markers as well (Qi et al 1998;Haanstra et al 1999;Vuylsteke et al 1999;Young et al 1999;Jeuken et al 2001). Brugmans et al (2002) suggested that the ideal distribution of markers to find functional or causal genes for a trait of interest is not necessarily regular spacing across the whole genome, but rather a concentration of markers in the coding regions of the genome, suggesting that the map presented here is well-suited for QTL analysis.…”

Section: Discussionmentioning

confidence: 84%

Genetic map construction and QTL analysis of nitrogen use efficiency in spinach (Spinacia oleracea L.)

et al. 2015

View full text Add to dashboard Cite

Cultivation of spinach requires high amounts of nitrogen (N), which puts a strain on the environment. A sustainable solution to this problem is to breed for crops with higher N use efficiency (NUE). The aim of this study was to provide tools for molecular breeding and to elucidate the genetic variation of factors contributing to NUE in spinach. A cross was made between two F 1 hybrid cultivars contrasting in NUE. Several F1 progeny were selfpollinated and based on evaluation of the F2 generation, a mapping F 2 population (335 individuals) of a single F1 was selected. SNP markers for the genetic map were discovered by RNA sequencing of the two parent cultivars, and 283 SNP markers were used to produce a genetic map comprising of six linkage groups (P01-P06), ranging in size from 46 to 116 cM. NUE related traits were determined for a set of F 2:3 families grown under low and high N conditions in a hydroponics system under an Ingestad N-addition model. Interval mapping analysis detected 39 traitspecific QTLs, with several QTLs accumulating on P01 and P02 of the linkage map. The QTLs and in particular the P01 and P02 regions provide potential targets for the improvement of NUE in spinach.

show abstract

Section: Discussionmentioning

confidence: 84%

Genetic map construction and QTL analysis of nitrogen use efficiency in spinach (Spinacia oleracea L.)

et al. 2015

View full text Add to dashboard Cite

show abstract

“…Given the nonrandom segregation of markers with the AFLP, this may have influenced estimates of linkage in microsatellites. For example, many studies have suggested that AFLP loci are more centromeric than microsatellites (Haanstra et al 1999;Young et al 1999), which could have partially explained these patterns. The nonrandom distribution of microsatellites may also be associated with a stabilizing function in the architecture of chromatin, possibly contributing to the degree of segregation bias at the terminal ends (Blackburn and Greider 1995;Takayanagi et al 1997;de Caceres et al 2004).…”

Section: Discussionmentioning

confidence: 99%

Linkage Maps of thedwarfand Normal Lake Whitefish (Coregonus clupeaformis) Species Complex and Their Hybrids Reveal the Genetic Architecture of Population Divergence

2007

View full text Add to dashboard Cite

Elucidating the genetic architecture of population divergence may reveal the evolution of reproductive barriers and the genomic regions implicated in the process. We assembled genetic linkage maps for the dwarf and Normal lake whitefish species complex and their hybrids. A total of 877 AFLP loci and 30 microsatellites were positioned. The homology of mapped loci between families supported the existence of 34 linkage groups (of 40n expected) exhibiting 83% colinearity among linked loci between these two families. Classes of AFLP markers were not randomly distributed among linkage groups. Both AFLP and microsatellites exhibited deviations from Mendelian expectations, with 30.4% exhibiting significant segregation distortion across 28 linkage groups of the four linkage maps in both families (P , 0.00001). Eight loci distributed over seven homologous linkage groups were significantly distorted in both families and the level of distortion, when comparing homologous loci of the same phase between families, was correlated (Spearman R ¼ 0.378, P ¼ 0.0021). These results suggest that substantial divergence incurred during allopatric glacial separation and subsequent sympatric ecological specialization has resulted in several genomic regions that are no longer complementary between dwarf and Normal populations issued from different evolutionary glacial lineages. U NDERSTANDING the genetic consequences of population divergence is central to evolutionary biology (Edmands 2002;Coyne and Orr 2004;de Queiroz 2005). Namely, the ability to detect genetic regions implicated in this evolutionary process may provide insight into the genomic regions involved and the evolution of their role as potential barriers to gene flow. This remains challenging without knowledge of the genetic architecture, i.e., the number, location, and effect of genomic locations contributing to differentiation within and among populations or species (Rieseberg 1998;Orr and Turelli 2001). As genetic architecture may either promote or constrain divergence (Hawthorne and Via 2001), such genomewide perspectives are integral in working toward a complete understanding of the functional genomic response to the evolutionary processes incurred by populations as they diverge (Ting et al. 2001;Emelianov et al. 2004;Wu and Ting 2004).Genetic linkage mapping approaches have several advantages for addressing these issues (Rieseberg 1998). Such an approach has led to the detection of genomic regions resistant to introgression (e.g., Rieseberg et al. 1999;Rogers et al. 2001;Lexer et al. 2003), the identification of adaptive QTL, and the dissection of complex traits (e.g., Peichel et al. 2001;Saintagne et al. 2004) and has proven valuable for the mapping of gene expression profiles (expression QTL, e.g., Kirst et al. 2005). Comparative linkage mapping among species has also allowed inference about the types of genomic changes that may accompany divergence (e.g., Kuittinen et al. 2004, Lexer et al. 2005, Gharbi et al. 2006. Altogether, genetic mapping has provided an ...

show abstract

“…Consensus maps including various types of molecular markers have been developed before in several species, e.g. barley (Langridge et al 1995;Qi et al 1996;Karakousis et al 2003), tomato (Haanstra et al 1999), wheat (Somers et al 2004), pearl millet (Qi et al 2004) and potato (Van Os et al 2006). We have derived the most extensive consensus SSR map of barley so far.…”

Section: Features Of the Barley Ssr Consensus Mapmentioning

confidence: 99%

A high density barley microsatellite consensus map with 775 SSR loci

Varshney

Marcel

Ramsay³

et al. 2007

Theor Appl Genet

301

230

View full text Add to dashboard Cite

An integrated high-density RFLP-AFLP map of tomato based on two Lycopersicon esculentum×L. pennellii F2 populations

Cited by 123 publications

References 24 publications

Genetic map construction and QTL analysis of nitrogen use efficiency in spinach (Spinacia oleracea L.)

Genetic map construction and QTL analysis of nitrogen use efficiency in spinach (Spinacia oleracea L.)

Linkage Maps of thedwarfand Normal Lake Whitefish (Coregonus clupeaformis) Species Complex and Their Hybrids Reveal the Genetic Architecture of Population Divergence

A high density barley microsatellite consensus map with 775 SSR loci

Contact Info

Product

Resources

About