Transcriptome and Microsatellite Analysis of Camellia brevistyla
Journal
Taiwan Journal of Forest Science
Journal Volume
38
Journal Issue
3
Start Page
233
End Page
248
Date Issued
2023
Author(s)
Liu, Tse-Yen
Abstract
Camellia brevistyla is a native tree species in Taiwan with economic importance for cooking oil and tea-seed oil. In this study we built the first transcriptome database of C. brevistyla, establishing a valuable resource for future investigations. We also developed and validated microsatellite markers for analyzing genetic relationships within the species. We obtained 65,722 unigenes and identified 25,996 simple sequence repeats (SSRs) within 47,595 unigenes and designed 8,113 SSR primers. Among these, 2,158 SSRs were longer than 18 base pairs (bps), primarily tri-nucleotide repeats, and the largest percentage (37%) were CT/TC repeats. Of the randomly selected 90 primer pairs, 49 (54.44%) were successfully amplified using a polymerase chain reaction (PCR) and then analyzed with a 1.5% agarose gel. In a gene ontology (GO) analysis, 34,009 unigenes were assigned 1 or more GO terms at level 2. In a Kyoto Encyclopedia of Genes and Genomes (KEGG) database analysis, 7,842 unigenes were annotated against the KEGG database, locating 16,109 enzyme-catalyzed sites on 141 KEGG pathways. Fatty-acid related metabolism involved 23 sites catalyzed by enzymes. We expect that this database and the SSR markers identified will contribute to ongoing molecular breeding, variety identification, gene cloning, and genetic analyses. © 2023 Taiwan Forestry Research Institute. All rights reserved.
Subjects
Camellia brevistyla
gene annotation
simple sequence repeat (SSR)
transcriptome
Publisher
Taiwan Forestry Research Institute
Type
journal article