Use of microsatellites to evaluate genetic diversity and species relationships in the genus Lycopersicon

Alvarez, Adriana E.; Wiel, C.C.M. van de; Smulders, M.J.M.; Vosman, Ben

doi:10.1007/s001220100662

Cited by 105 publications

(70 citation statements)

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“…With the notable exception of S. neorickii, which ranked third in total number of unique alleles, autogamous self-compatible species had fewer unique alleles and were rarely heterozygous. This relationship between mating system and genetic diversity of microsatellites was also reported by Alvarez et al (2001).…”

Section: Survey Of Ssrs For Polymorphism Across Tomato Varieties and supporting

confidence: 80%

“…On average, 5.5 alleles per SSR were detected for the seven different species examined. In similar studies, three (Smulders et al 1997;Suliman-Pollatschek et al 2002) and 8.5 (Alvarez et al 2001) alleles per locus were identified in four and ten different tomato species, respectively. Thus, the present results are within the range expected for such a comparison.…”

Section: Survey Of Ssrs For Polymorphism Across Tomato Varieties and mentioning

confidence: 76%

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Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

et al. 2005

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Tomato and potato expressed sequence tag (EST) sequences contained in the solanaceae genomics network (SGN) database were screened for simple sequence repeat (SSR) motifs. A total of 609 SSRs were identified and assayed on Solanum lycopersicum LA925 (formerly Lycopersicon esculentum) and S. pennellii LA716 (formerly L. pennellii). The SSRs that did not amplify, gave multiple band products, or did not exhibit a polymorphism that could be readily detected on standard agarose gels in either of these species were eliminated. A set of 76 SSRs meeting these criteria was then placed on the S. lycopersicum (LA925) · S. pennellii (LA716) high-density map. A set of 76 selected cleaved amplified polymorphism (CAP) markers was also developed and mapped onto the same population. These 152 PCR-based anchor markers are uniformly distributed and encompass 95% of the genome with an average spacing of 10.0 cM. These PCRbased markers were further used to characterize S. pennellii introgression lines (Eshed and Zamir, Genetics 141:1147-1162 and should prove helpful in utilizing these stocks for high-resolution mapping experiments. The majority of these anchor markers also exhibit polymorphism between S. lycopersicum and two wild species commonly used as parents for mapping experiments, S. pimpinellifolium (formerly L. pimpinellifolium) and S. habrochaites (formerly L. hirsutum), indicating that they will be useful for mapping in other interspecific populations. Sixty of the mapped SSRs plus another 49 microsatellites were tested for polymorphism in seven tomato cultivars, four S. lycopersicum var. cerasiforme accessions and eight accessions of five different wild tomato species. Polymorphism information content values were highest among the wild accessions, with as many as 13 alleles detected per locus over all accessions. Most of the SSRs (90%) had accession-specific alleles, with the most unique alleles and heterozygotes usually found in accessions of selfincompatible species. The markers should be a useful resource for qualitative and quantitative trait mapping, marker-assisted selection, germplasm identification, and genetic diversity studies in tomato. The genetic map and marker information can be found on SGN (http:// www.sgn.cornell.edu).

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Section: Survey Of Ssrs For Polymorphism Across Tomato Varieties and supporting

confidence: 80%

Section: Survey Of Ssrs For Polymorphism Across Tomato Varieties and mentioning

confidence: 76%

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

et al. 2005

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“…Ceratochloa). Sequence data from additional nuclear loci, such as the granule-bound starch synthase gene (waxy; e.g., Mason-Gamer 2001), AFLPs (e.g., Beardsley et al 2003;Després et al 2003), or microsatellites (e.g., Alvarez et al 2001) may provide further insight into specieslevel relationships in Bromus. Adding data from the plastid genome (e.g., Shaw et al 2005) and the nuclear ribosomal region (the external transcribed spacer [ETS] of nuclear rDNA; e.g., Baldwin and Markos 1998;Markos and Baldwin 2002;Starr et al 2003) would also be valuable to improve resolution and support of trees inferred from these two linkage groups.…”

Section: Discussionmentioning

confidence: 99%

Molecular Phylogenetics of Bromus (Poaceae: Pooideae) Based on Chloroplast and Nuclear DNA Sequence Data

Saarela

Peterson²,

Keane³

et al. 2007

aliso

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We conducted a phylogenetic analysis to characterize relationships among Bromus and test the monophyly of five of the seven morphologically distinct groups within Bromus (Poaceae: Pooideae) that have been treated as sections, subgenera, or genera. We sequenced the chloroplast trnL (UAA) intron, the 3Ј-end of the chloroplast ndhF gene, and the internal transcribed spacers (ITS) of the nuclear ribosomal DNA region for 46 species that represent a large proportion of the morphological and geographical diversity in the genus. Independent analyses of plastid and nuclear ribosomal data identified several lineages in Bromus, but there is some evidence of incongruence between these linkage groups. Nuclear ribosomal trees indicate that two clades comprising some North and South American species of sect. Bromopsis are the successive sister groups of the rest of the genus, and that Old World species of sect. Bromopsis are more closely related to sects. Ceratochloa and Neobromus than they are to the remaining North American species of sect. Bromopsis. In contrast, plastid trees indicate a close relationship between Old World and some North American species of sect. Bromopsis. In the nuclear ribosomal trees, sects. Genea and Bromus (if sect. Triniusia is included within it, as treated by most authors) are monophyletic and not closely related. In the plastid trees, species of these two sections are intermixed, supporting a hybrid origin for B. pectinatus. The monophyly of sect. Ceratochloa is supported in the plastid and nuclear ribosomal trees, and the monophyly of sect. Neobromus is robustly supported in the nuclear ribosomal trees. Current classification schemes do not reflect phylogenetic relationships in Bromus. Tentative evidence of conflict among nuclear and plastid data partitions needs clarification with more robustly supported plastid and nuclear ribosomal gene trees.

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“…Los microsatélites han sido empleados también para estimar la distribución de la diversidad en el género Lycopersicon y evaluar la eficiencia de los microsatélites en el establecimiento de las relaciones entre especies en comparación con otras construcciones filogenéticos establecidas con anterioridad (Alvarez et al, 2001). En general los árboles obtenidos a partir de este tipo de marcadores fueron consistentes con los previamente publicados basados en RFLP y las clasificaciones basadas en caracteres morfológicos y sistema reproductivo (Rick, 1979).…”

Section: Estudios De Variabilidad Morfólogicaunclassified

Análisis de la variabilidad en las especies del subgénero Eulycopersicon más relacionadas con el tomate cultivado.

Domingos¹

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Queda prohibida la reproducción, distribución, comercialización, transformación, y en general, cualquier otra forma de explotación, por cualquier procedimiento, de todo o parte de los contenidos de esta obra sin autorización expresa y por escrito de sus autores. Impreso en España RESUMENEl Centro de Conservación y Mejora de la Agrodiversidad (COMAV) de la Universidad Politécnica de Valencia alberga una de las colecciones más importantes de entradas del género Lycopersicon, incluyendo el tomate cultivado (Lycopersicon esculentum, L. esculentum var. cerasiforme) y sus especies silvestres relacionadas (L. cheesmanii, L. pimpinellifolium, L. hirsutum, L. pennellii, L. chmilewskii, L. parviflorum L. peruvianum y L. chilense).A pesar de ser el tomate una de las hortalizas de mayor importancia económica a nivel mundial, siguen existiendo ambigüedades en su taxonomía así como dudas sobre su domesticación. De hecho, se observan en muchas ocasiones formas intermedias entre el tomate cultivado y la variedad botánica cerasiforme, así como entre la forma cerasiforme y la especie L. pimpinellifolium. Igualmente se han detectado formas intermedias entre L. pimpinellifolium y la especie L. cheesmanii, endémica de las islas Galápagos. Estas especies constituyen el subgénero Eulycopersicon, interfértiles con el tomate cultivado. De ellas, la variedad botánica cerasifrome está considerada como el ancestro del tomate y se ha comprobado la existencia de fenómenos de introgresión entre L. pimpinellifolium y el tomate. Las teorías sobre la domesticación del tomate no son únicas, oponiéndose las teorías de Jenkins (1948) Para contribuir a la clarificación de estos aspectos, en la presente Tesis Doctoral se persiguen los siguientes objetivos:1.-Estudio de la variabilidad morfológica y molecular de estas especies 2.-Esclarecimiento de las relaciones filogenéticos entre las especies del subgénero Eulycopersicon.3.-Establecimiento de estrategias de conservación de estas especies y en especial de Lycopersicon pimpinellifolium, para la que se han descrito diferencias importantes en el grado de alogamia.4.-Inicio de la formación de una colección nuclear en la colección de entradas de L. pimpinellifolium del COMAV.Se han ensayado un total de 165 entradas del género Lycopersicon, perteneciendo 48 de ellas a Lycopersicon esculentun var. cerasiforme, 86 a L. pimpinellifolium y 31 a L. esculentum, en las campañas de otoño-invierno durante los años 2000-01 y 2001-02. Para la caracterización morfológica de las plantas se han seguido los descriptores de tomate publicados por el IPGRI. La caracterización molecular se realizó mediante marcadores AFLP. Los datos se han analizado mediante análisis multivariante, realizando Análisis de Componentes Principales y Análisis Cluster. En el análisis de datos cuantitativos se han calculado las distancias euclídeas y se ha empleado el método de agrupamiento UPGMA. La robustez y nivel de fiabilidad se ha medido mediante la técnica de remuestreo bootstrap. Se realizó un análisis de la Varianza (ANOVA) y posterio...

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Use of microsatellites to evaluate genetic diversity and species relationships in the genus Lycopersicon

Cited by 105 publications

References 23 publications

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments

Molecular Phylogenetics of Bromus (Poaceae: Pooideae) Based on Chloroplast and Nuclear DNA Sequence Data

Análisis de la variabilidad en las especies del subgénero Eulycopersicon más relacionadas con el tomate cultivado.

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