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Robust DNA Isolation and High-throughput Sequencing Library Construction for Herbarium Specimens
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A Highly Dense Genetic Map for Ginkgo biloba Constructed Using Sequence-Based Markers.

Hailin Liu1, Fuliang Cao1, Tongming Yin1

  • 1Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry UniversityNanjing, China.

Frontiers in Plant Science
|July 1, 2017
PubMed
Summary

A high-density genetic map for Ginkgo biloba was created using specific-locus amplified fragment sequencing. This map aids future genomic studies and marker-assisted selection in this important tree species.

Keywords:
Ginkgo bilobahigh densitylinkage mapmegagametophytespecific-locus amplified fragment sequencing

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Area of Science:

  • Plant genetics and genomics
  • Forest tree breeding
  • Molecular biology

Background:

  • Ginkgo biloba L. is a valuable living fossil with significant medicinal and ornamental importance.
  • Developing genomic resources for Ginkgo is crucial due to its economic and biological significance.
  • Previous efforts have focused on sequencing the Ginkgo genome, necessitating a high-quality genetic map for assembly anchoring.

Purpose of the Study:

  • To construct a high-density genetic map for Ginkgo biloba using sequence-based markers.
  • To provide a foundational platform for anchoring genome assemblies to chromosomes.
  • To facilitate future genetic studies, including gene mapping and marker-aided selection.

Main Methods:

  • Employed specific-locus amplified fragment (SLAF) sequencing technique on megagametophytes from 94 Ginkgo seeds.
  • Sequencing yielded 538,031 high-quality SLAFs with an average depth of 11.20×.
  • Constructed a genetic map comprising 12,263 SLAFs assigned to 12 linkage groups (LGs), corresponding to the chromosome number.

Main Results:

  • A high-density genetic map of Ginkgo biloba was successfully established with a total length of 1,671.77 cM.
  • The map features an average distance of 0.89 cM between adjacent marker bins, indicating high marker density.
  • Map quality was validated using haplotype and heat map analyses.

Conclusions:

  • The developed high-density genetic map is a high-quality resource for Ginkgo biloba research.
  • This map will serve as a critical platform for anchoring genome sequence assemblies to chromosomes.
  • It provides a valuable tool for gene mapping, quantitative trait locus analysis, and marker-aided selection in Ginkgo.