A rapid procedure for the isolation of C0t-1 DNA from plants

Zwick, Michael S.; Hanson, Robert E.; Islam-Faridi, M. Nurul; Stelly, David M.; Wing, Rod A.; Price, H. James; McKnight, Thomas D.

doi:10.1139/g97-020

Cited by 197 publications

(156 citation statements)

References 19 publications

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“…These SC spreads are essentially the same as those made on plastic-coated slides for RN mapping by electron microscopy (Sherman and Stack 1995) Preparation of Cot 100 nuclear DNA for use in chromosomal in situ suppression hybridization: Nuclear DNA was isolated from etiolated tomato seedlings (Peterson and Stack 1997). The DNA was sheared to $500 bp by sonication, denatured, and renatured to Cot 100 (Zwick et al 1997;Chang 2004). Cot 100 DNA was selected because it should include most of the repetitive sequences in the tomato genome (Peterson et al 1999).…”

Section: Methodsmentioning

confidence: 99%

Predicting and Testing Physical Locations of Genetically Mapped Loci on Tomato Pachytene Chromosome1

Chang¹,

Anderson

Sherman

et al. 2007

Genetics

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Predicting the chromosomal location of mapped markers has been difficult because linkage maps do not reveal differences in crossover frequencies along the physical structure of chromosomes. Here we combine a physical crossover map based on the distribution of recombination nodules (RNs) on Solanum lycopersicum (tomato) synaptonemal complex 1 with a molecular genetic linkage map from the interspecific hybrid S. lycopersicum 3 S. pennellii to predict the physical locations of 17 mapped loci on tomato pachytene chromosome 1. Except for one marker located in heterochromatin, the predicted locations agree well with the observed locations determined by fluorescence in situ hybridization. One advantage of this approach is that once the RN distribution has been determined, the chromosomal location of any mapped locus (current or future) can be predicted with a high level of confidence.

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Section: Methodsmentioning

confidence: 99%

Predicting and Testing Physical Locations of Genetically Mapped Loci on Tomato Pachytene Chromosome1

Chang¹,

Anderson

Sherman

et al. 2007

Genetics

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“…M1706545; Bio-Rad, Hercules, CA) according to the manufacturer's instructions. Maize Cot-100 DNA was prepared as described (Zwick et al 1997). Autoclaved genomic DNA (maize, T. dactyloides, or Z. diploperennis) and maize Cot-100 DNA were labeled with 32 P-dCTP using a random decamer priming reaction (DECAprime II, cat.…”

Section: Methodsmentioning

confidence: 99%

Retroelement Genome Painting: Cytological Visualization of Retroelement Expansions in the Genera Zea and Tripsacum

Lamb

Birchler

2006

Genetics

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Divergence of abundant genomic elements among the Zea and Tripsacum genera was examined cytologically and a tool kit established for subsequent studies. The LTR regions from the CRM, Huck, Grande, Prem1, Prem2/Ji, Opie, Cinful-1, and Tekay retroelement families were used as FISH probes on mitotic chromosome spreads from a ''trispecies'' hybrid containing chromosomes from each of three species: Zea mays (2n ¼ 20), Z. diploperennis (2n ¼ 20), and Tripsacum dactyloides (2n ¼ 36). Except for Tekay, which painted both Zea and Tripsacum chromosomes with nearly equal intensity, the retroelement probes hybridized strongly to the Zea chromosomes, allowing them to be distinguished from those of Tripsacum. Huck and Grande hybridized more intensely to maize than to Z. diploperennis chromosomes. Tripsacum genomic clones containing retroelement sequences were isolated that specifically paint Tripsacum chromosomes. The retroelement paints proved effective for distinguishing different genomes in interspecific hybrids and visualizing alien chromatin from T. dactyloides introgressed into maize lines. Other FISH probes (180-bp knob, TR-1, 5S, NOR, Cent4, CentC, rp1, rp3, and a-ZeinA) could be simultaneously visualized with the retroelement probes, emphasizing the value of the retroelement probes for cytogenetic studies of Zea and Tripsacum.

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“…As commercial salmon sperm blocking DNA (Sigma-Aldrich, St Louis, MO, USA) was not sufficient to block the hybridization of high-copy repeat sequences, therefore, Cot1-DNA directly isolated from T. auritus female genome (prepared according to Zwick et al, 1997) was used instead. Hybridization was performed for 16-18 h at 37°C in a moist chamber.…”

Section: Three-color Fish For Wcpmentioning

confidence: 99%

Highly conserved Z and molecularly diverged W chromosomes in the fish genus Triportheus (Characiformes, Triportheidae)

et al. 2016

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The main objectives of this study were to test: (1) whether the W-chromosome differentiation matches to species' evolutionary divergence (phylogenetic concordance) and (2) whether sex chromosomes share a common ancestor within a congeneric group. The monophyletic genus Triportheus (Characiformes, Triportheidae) was the model group for this study. All species in this genus so far analyzed have ZW sex chromosome system, where the Z is always the largest chromosome of the karyotype, whereas the W chromosome is highly variable ranging from almost homomorphic to highly heteromorphic. We applied conventional and molecular cytogenetic approaches including C-banding, ribosomal DNA mapping, comparative genomic hybridization (CGH) and cross-species whole chromosome painting (WCP) to test our questions. We developed Z-and W-chromosome paints from T. auritus for cross-species WCP and performed CGH in a representative species (T. signatus) to decipher level of homologies and rates of differentiation of W chromosomes. Our study revealed that the ZW sex chromosome system had a common origin, showing highly conserved Z chromosomes and remarkably divergent W chromosomes. Notably, the W chromosomes have evolved to different shapes and sequence contents within~15-25 Myr of divergence time. Such differentiation highlights a dynamic process of W-chromosome evolution within congeneric species of Triportheus.

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A rapid procedure for the isolation of C₀t-1 DNA from plants

Cited by 197 publications

References 19 publications

Predicting and Testing Physical Locations of Genetically Mapped Loci on Tomato Pachytene Chromosome1

Predicting and Testing Physical Locations of Genetically Mapped Loci on Tomato Pachytene Chromosome1

Retroelement Genome Painting: Cytological Visualization of Retroelement Expansions in the Genera Zea and Tripsacum

Highly conserved Z and molecularly diverged W chromosomes in the fish genus Triportheus (Characiformes, Triportheidae)

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