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Tomato Analyzer: A Useful Software Application to Collect Accurate and Detailed Morphological and Colorimetric Data from Two-dimensional Objects
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Domestication Shapes Recombination Patterns in Tomato.

Roven Rommel Fuentes1, Dick de Ridder1, Aalt D J van Dijk1

  • 1Bioinformatics Group, Wageningen University and Research, Wageningen, The Netherlands.

Molecular Biology and Evolution
|October 1, 2021
PubMed
Summary
This summary is machine-generated.

Meiotic recombination in tomato is conserved but altered by domestication, with hotspots lost near selective sweeps. Genetic changes and transposable elements influenced these recombination patterns, causing linkage drag.

Keywords:
domesticationheterochromatinrecombinationselective sweepsstructural variantstransposable elements

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Area of Science:

  • Genetics
  • Plant Breeding
  • Molecular Biology

Background:

  • Meiotic recombination is crucial for generating genetic diversity and desirable traits in crop breeding.
  • Crop tomato exhibits reduced recombination and increased linkage disequilibrium compared to its wild relatives, impacting breeding efficiency.

Purpose of the Study:

  • To compare recombination landscapes between domesticated and wild tomato populations.
  • To investigate the dynamics of recombination hotspots during tomato domestication.
  • To identify genetic factors influencing recombination rate changes.

Main Methods:

  • Comparative genomics of domesticated and wild tomato populations.
  • Analysis of recombination landscapes and hotspot distribution.
  • Detection of genetic changes, structural variants, and transposable elements.

Main Results:

  • The overall recombination landscape in tomato is conserved, but effective recombination rates vary locally.
  • Loss of recombination hotspots was observed, particularly in pericentromeric heterochromatin, associated with selective sweeps.
  • Genetic changes and structural variants, including transposable elements, were linked to hotspot divergence during domestication.

Conclusions:

  • Domestication has led to localized alterations in tomato's recombination landscape, impacting genetic diversity.
  • The loss of recombination hotspots is associated with selective pressures and genetic modifications.
  • Understanding these changes is vital for improving breeding strategies and overcoming linkage drag in crops.