Simple sequences are ubiquitous repetitive components of eukaryotic genomes

Tautz, Diethard; Renz, Manfred

doi:10.1093/nar/12.10.4127

Cited by 1,168 publications

(653 citation statements)

References 45 publications

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“…It is possible that the selection on gene bias the nSSR allele distribution as reported in a review on microsatellites within genes by Li et al (2004). In addition, nSSR markers do not undergo the same evolutionary process as AFLPs, RAPDs, or nRFLPs, but evolve mostly by a slippage mechanism more frequently that base pair changes and insertions and deletions (Tautz and Rentz 1984;Tautz et al 1986;Delsney et al 1988). Another factor is possible nonhomology of bands (Chalmers et al 1992;Tinker et al 1993).…”

Section: Discussionmentioning

confidence: 99%

Genetic analysis of the cultivated potato Solanum tuberosum L. Phureja Group using RAPDs and nuclear SSRs

et al. 2006

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The Solanum tuberosum L. Phureja Group consists of potato landraces widely grown in the Andes from western Venezuela to central Bolivia, and forms an important breeding stock due to their excellent culinary properties and other traits for developing modern varieties. They have been distinguished by short-day adaptation, diploid ploidy (2n = 2x = 24), and lack of tuber dormancy. This nuclear simple sequence repeat (nSSR or microsatellite) study complements a prior random ampliWed polymorphic DNA (RAPD) study to explore the use of these markers to form a core collection of cultivar groups of potatoes. Like this prior RAPD study, we analyzed 128 accessions of the Phureja Group using nuclear microsatellites (nSSR). Twenty-six of the 128 accessions were invariant for 22 nSSR markers assayed. The nSSR data uncovered 25 unexpected triploid and tetraploid accessions. Chromosome counts of the 102 accessions conWrmed these nSSR results and highlighted seven more triploids or tetraploids. Thus, these nSSR markers (except 1) are good indicators of ploidy for diploid potatoes in 92% of the cases. The nSSR and RAPD results: (1) were highly discordant for the remaining 70 accessions that were diploid and variable in nSSR, (2) show the utility of nSSRs to eVectively uncover many ploidy variants in cultivated potato, (3) support the use of a cultivargroup (rather than a species) classiWcation of cultivated potato, (4) fail to support a relationship between genetic distance and geographic distance, (5) question the use of any single type of molecular marker to construct core collections.

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Section: Discussionmentioning

confidence: 99%

Genetic analysis of the cultivated potato Solanum tuberosum L. Phureja Group using RAPDs and nuclear SSRs

et al. 2006

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“…It is envisaged that simple repeats. are randomly generated on all chromosomes at a high frequency due to anomalaus replication from a pool of low molecular weight forms (Tautz and Renz 1984). It is likely that owing to point mutations, slipped strand mispairing and crossover events during meiosis these sequences may be reduced in the genome while sequences on the Y chromosome will be preserved for Ionger time intervals as a result of its perpetually haploid state: therefore the three above mentioned mechanisms may still be in operation on poeciliid sex chromosomes with their high overall homology except for nascent differentiation.…”

Section: Discussionmentioning

confidence: 99%

Early stages of sex chromosome differentiation in fish as analysed by simple repetitive DNA sequences

Nanda

Schartl²,

Feichtinger

et al. 1992

Chromosoma

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Abstract. Animal sex chromosome evolution has started on different occasions with a homologous pair of autosomes leading to morphologically differentiated gonosomes. In contrast to other vertebrate classes, among fishes cytologically dernonstrahle sex chromosomes are rare. In reptiles, certain motifs of simple tandemly repeated DNA sequences like (gata)n/(gaca)m are associated with the constitutive heterochromatin of sex chromosomes. In this study a panel of simple repetitive sequence probes was hybridized to restriction enzyme digested genomic DNA of poeciliid fishes. Apparent male heterogamety previously established by genetic experiments in Poecilia reticulata (guppy) was correlated with male-specific hybridization using the (GACA) 4 probe. The (GAT A) 4 oligonucleotide identifies certain male guppies by a Y chromosomal polymorphism in the outbred population. In cantrast none of the genetically defined heterogametic situations in Xiphophorus could be verified consistently using the collection of simple repetitive sequence probes. Only individuals from particular populations produced sex-specific patterns of hybridization with (GAT A) 4 • Additional poeciliid species (P. sphenops, P. velifera) harbour different sex-specifically organized simple repeat motifs. The observed sex-specific hybridization patterns were substantiated by banding analyses of the karyotypes and by in situ hybridization using the (GACA) 4 probe.

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“…DNA microsatellites have been the basis of the majority of the recent approaches. Microsatellite loci consist of motifs of one to six base pairs repeated in tandem, which are very common in eukaryotic genomes (Tautz & Renz, 1984). Microsatellites are inherently instable and most mutations are believed to be caused by slip-strand mispairing errors during DNA replication and recombination (Hancock, 1999).…”

Section: Introductionmentioning

confidence: 99%

Genetic variability of marine shrimp in the Brazilian industry

Maggioni

Coimbra

Costa

et al. 2013

Pesq. agropec. bras.

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-The objective of this work was to estimate the genetic variability level and distribution in Brazilian broodstocks of marine shrimp (Litopenaeus vannamei). Nine of the country's largest hatcheries were evaluated using codominant and highly polymorphic microsatellite markers. The results obtained from genotyping of ten microsatellite loci are indicative of genetic variability that is compatible with that found in wild populations of L. vannamei in Mexico and Central America. A possible explanation is the highly diversified and relatively recent origin of the available broodstocks. Bayesian analysis detected a signal for five founding populations. The distribution of genetic distances partially reflects geographical location, and this information will be useful for the creation of new broodstocks. Therefore, L. vannamei genetic variability among nine of the largest national hatcheries can be considered high.Index terms: Litopenaeus vannamei, aquaculture, microsatellite, shrimp farming. Variabilidade genética do camarão marinho na indústria brasileiraResumo -O objetivo deste trabalho foi estimar o nível e a distribuição da variabilidade genética em reprodutores brasileiros do camarão marinho (Litopenaeus vannamei). Nove dos maiores laboratórios de maturação do país foram analisados por meio de marcadores microssatélites codominantes e altamente polimórficos. Os resultados obtidos a partir da genotipagem de dez locos de microssatélites são indicativos de variabilidade genética compatível com aquela encontrada em populações naturais de L. vannamei no México e na América Central. Uma possível explicação é a origem altamente diversificada e relativamente recente dos plantéis disponíveis. A análise bayesiana detectou sinal correspondente a cinco populações originais. A distribuição das distâncias genéticas reflete parcialmente a localização geográfica, e essa informação será útil na formação de novos plantéis. Portanto, a variabilidade genética de L. vannamei entre nove dos maiores laboratórios de maturação nacionais pode ser considerada alta.Termos para indexação: Litopenaeus vannamei, aquacultura, microssatélite, carcinicultura.

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Simple sequences are ubiquitous repetitive components of eukaryotic genomes

Cited by 1,168 publications

References 45 publications

Genetic analysis of the cultivated potato Solanum tuberosum L. Phureja Group using RAPDs and nuclear SSRs

Genetic analysis of the cultivated potato Solanum tuberosum L. Phureja Group using RAPDs and nuclear SSRs

Early stages of sex chromosome differentiation in fish as analysed by simple repetitive DNA sequences

Genetic variability of marine shrimp in the Brazilian industry

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