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A Reference Genome Sequence for Giant Sequoia.

Alison D Scott1, Aleksey V Zimin2,3,4, Daniela Puiu2,4

  • 1Department of Plant Sciences, University of California, Davis, CA 95616 aliscott@ucdavis.edu.

G3 (Bethesda, Md.)
|September 19, 2020
PubMed
Summary
This summary is machine-generated.

Researchers have sequenced the giant sequoia genome, providing a vital resource for conservation. This genomic data will aid in developing tools for managing and restoring these iconic California trees.

Keywords:
Sequoiadendron giganteumconiferdisease resistance genesgenome assemblygiant sequoiagymnosperm

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Area of Science:

  • Genomics
  • Botany
  • Conservation Biology

Background:

  • Giant sequoias (Sequoiadendron giganteum) are ancient, monumental trees native to California's Sierra Nevada.
  • Limited genomic data has hindered efforts in giant sequoia conservation and management.
  • A high-quality reference genome is crucial for developing genetic markers.

Purpose of the Study:

  • To generate a high-quality reference genome sequence for giant sequoia.
  • To enable the development of genomic tools for restoration and management.
  • To provide the first genome sequence for the Cupressaceae family.

Main Methods:

  • Utilized deep-coverage Illumina and Oxford Nanopore sequencing.
  • Employed Dovetail chromosome conformation capture libraries for assembly.
  • Annotated protein-coding genes using Iso-Seq transcripts from multiple tissues.

Main Results:

  • Assembled an 8.125 Gbp genome into eleven chromosome-scale scaffolds.
  • Annotated 41,632 protein-coding genes.
  • Identified over 900 complete or partial nucleotide-binding domain, leucine-rich repeat (NLR) genes, with 375 supported by evidence.

Conclusions:

  • The giant sequoia reference genome is the first for the Cupressaceae family.
  • This genome sequence provides a foundation for genomic-assisted conservation and management strategies.
  • The identified NLR genes offer insights into tree defense mechanisms.