| Title: |
Chromosome-scale genome assembly for yellow wood sorrel, Oxalis stricta |
| Authors: |
Wood, Joshua C; Hamilton, John P; Vaillancourt, Brieanne; Brose, Julia; Edger, Patrick P; Buell, C Robin |
| Contributors: |
Whiteman, N; U.S. National Science Foundation; University of Georgia; Georgia Research Alliance; Georgia Seed Development |
| Source: |
G3: Genes, Genomes, Genetics ; volume 16, issue 3 ; ISSN 2160-1836 |
| Publisher Information: |
Oxford University Press (OUP) |
| Publication Year: |
2026 |
| Description: |
Yellow wood sorrel (Oxalis stricta L.), also known as sourgrass, juicy fruit, or sheep weed, is a member of the Oxalidaceae family. Yellow wood sorrel is commonly considered a weed, and while native to North America, it is distributed across Europe, Asia, and Africa. To date, only 2 other genomes from the Oxalidaceae family have been published, star fruit (Averrhoa carambola L.) and Oxalis articulata Savigny. Here, we present a chromosome-scale assembly for O. stricta, revealing its allotetraploid nature and synteny within its 2 subgenomes as well as synteny with A. carambola and O. articulata. Using Oxford Nanopore Technologies long-read sequences coupled with chromatin capture sequencing, we generated a 436 Mb chromosome-scale assembly of O. stricta with a scaffold N50 length of 36.2 Mb that is anchored to 12 chromosomes across the 2 subgenomes. Assessment of the final genome assembly using the Long Terminal Repeat Assembly Index yielded a score of 13.12, and assessment of Benchmarking Universal Single Copy Orthologs revealed 99.6% complete orthologs; both metrics are suggestive of a high-quality reference genome. Total repetitive sequence content in the O. stricta genome was 39.7% with retroelements being the largest class of transposable elements. Annotation of protein-coding genes yielded 61,550 high-confidence genes encoding 115,089 gene models. Synteny between the 2 O. stricta subgenomes was present in 93 syntenic blocks containing 40,750 genes, of which, 76.47% were present in 1:1 syntenic relationships between the 2 subgenomes. The availability of an annotated chromosome-scale high-quality genome assembly for O. stricta will provide a launching point to understand the high fecundity of this weed and provide further foundation for comparative genomics within the Oxalidaceae. |
| Document Type: |
article in journal/newspaper |
| Language: |
English |
| DOI: |
10.1093/g3journal/jkaf317 |
| DOI: |
10.1093/g3journal/jkaf317/66226859/jkaf317.pdf |
| Availability: |
https://doi.org/10.1093/g3journal/jkaf317; https://academic.oup.com/g3journal/advance-article-pdf/doi/10.1093/g3journal/jkaf317/66226859/jkaf317.pdf; https://academic.oup.com/g3journal/article-pdf/16/3/jkaf317/66226859/jkaf317.pdf |
| Rights: |
https://creativecommons.org/licenses/by/4.0/ |
| Accession Number: |
edsbas.F4562F4 |
| Database: |
BASE |