ArticleMolecular & general genetics : MGG1996
Characterization and genetic mapping of simple repeat sequences in the tomato genome.
Article in Molecular & general genetics : MGG, 1996. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 169 citations in OpenAlex.
- A physical map of traits of agronomic importance based on potato and tomato genome sequences.Frontiers in genetics · 2023Review
- Genetic linkage mapping and transmission ratio distortion in a three-generation four-founder population of Panicum virgatum (L.).G3 (Bethesda, Md.) · 2014Article
- Advancing the STMS genomic resources for defining new locations on the intraspecific genetic linkage map of chickpea (Cicer arietinum L.).BMC genomics · 2011Article
- Development of SSR markers derived from SSR-enriched genomic library of eggplant (Solanum melongena L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2009Article
- Microsatellites for the genus Cucurbita and an SSR-based genetic linkage map of Cucurbita pepo L.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- Creation of a chloroplast microsatellite reporter for detection of replication slippage in Chlamydomonas reinhardtii.Eukaryotic cell · 2008Article
- Genetic diversity, structure and marker-trait associations in a collection of Italian tomato (Solanum lycopersicum L.) landraces.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- FISH mapping and molecular organization of the major repetitive sequences of tomato.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2008Article
- Genome mapping and molecular breeding of tomato.International journal of plant genomics · 2007Article
- An updated 'Essex' by 'Forrest' linkage map and first composite interval map of QTL underlying six soybean traits.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2006Article
- Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2005Article
- Article
- Comparative microsatellite linkage analysis and genetic structure of two populations of F6 lines derived from Lycopersicon pimpinellifolium and L. cheesmanii.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2005Article
- A new integrated genetic linkage map of the soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2004Article
- Characterization and molecular genetic mapping of microsatellite loci in pepper.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2004Article
- Sequence and analysis of the tomato JOINTLESS locus.Plant physiology · 2001Article
- A deep-coverage tomato BAC library and prospects toward development of an STC framework for genome sequencing.Genome research · 2000Article
- Identification of Epichloë endophytes in planta by a microsatellite-based PCR fingerprinting assay with automated analysis.Applied and environmental microbiology · 1999Article
- Phenotype of the tomato high pigment-2 mutant is caused by a mutation in the tomato homolog of DEETIOLATED1.The Plant cell · 1999Article
- Chromosomal localization and distribution of simple sequence repeats and the Arabidopsis-type telomere sequence in the genome of Cicer arietinum L.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 1998Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tomato genomic libraries were screened for the presence of simple sequence repeats (SSRs) with seventeen synthetic oligonucleotide probes, consisting of 2- to 5-basepair motifs repeated in tandem. GAn and GTn sequences were found to occur most frequently in the tomato genome (every 1.2 Mb), followed by ATTn and GCCn (every 1.4 Mb and 1.5 Mb, respectively). In contrast, only ATn and GAn microsatellites (n > 7) were found to be frequent in the GenBank database, suggesting that other motifs may be preferentially located away from genes. Polymorphism of microstellites was measured by PCR amplification of individual loci of by Southern hybridization, using a set of ten tomato cultivars. Surprisingly, only two of the nine microsatellite clones surveyed (five GTn, three GAn and one ATTn), showed length variation among these accessions. Polymorphism was also very limited between Lycopersicon esculentum and L. pennelli, two distant species. Southern analysis using the seventeen oligonucleotide probes identified GATAn and GAAAn as useful motifs for the detection of multiple polymorphic fragments among tomato cultivars. To determine the structure of microsatellite loci, a GAn probe was used for hybridization at low stringency on a small insert genomic library, and randomly selected clones were analyzed. GAn based motifs of increasing complexity were found, indicating that simple dinucleotide sequences may have evolved into larger tandem repeats such as minisatellites as a result of basepair substitution, replication slippage, and possibly unequal crossing-over. Finally, we genetically mapped loci corresponding to two amplified microsatellites, as well as nine large hypervariable fragments detected by Southern hybridization with a GATA8 probe. All loci are located around putative tomato centromeres. This may contribute to understanding of the structure of centromeric regions in tomato.
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