{"title":"DIFFERENTIALLY EXPRESSED GENES(DEGS) Dryobalanops aromaticaYANG DITUMBUHKAN PADA MEDIA GAMBUT DAN TANAH MINERAL","authors":"Yosie Syadza Kusuma, Fifi Gus Dwiyanti, Deden Derajat Matra","doi":"10.20886/jpth.2021.15.2.115-128","DOIUrl":null,"url":null,"abstract":"Dryobalanops aromaticais a highly economic value resin-producing tree. The resin has been known as an essensialsinternational trade commodity that is widely used in the perfume, cosmetic, medicine, and other non wood industries. In its natural habitats, this species has been found to grow well onbothpeatland and mineral soilsthat has raised a question on the molecular mechanism for adaptation. However, the information regarding adaptive genes in Indonesian native trees to abiotic stress is still very limited. This research was conducted to analyse the differentially expressed genes (DEGs) that can elucidate the role of several up-regulated and down-regulated genes of D. aromaticagrown inpeat media and mineral soil. DEGanalysis was carried out using R software, Bioconductor package 'edgeR'. Using the Benjamini and Hochberg approach to control FDR (FDR 0,05), with a Log₂FC 2 and p-value of 0,05, it showed 320 contigs that were up-regulated and 439 contigs were down-regulated, while 58129 contigs were not significantly expressed. Furthermore, this study also presents an overview of the genes involved in different pathways, such as photosynthesis, glycolysis, sucrose and strarch metabolism, hormone-related genes, nitrogen metabolism, reactive oxygen species and transcription factor. This information will be useful in understanding D. aromaticamolecular responses to stress condition that may be of use for selecting genotypes in the breeding programs or peatlands restoration","PeriodicalId":239445,"journal":{"name":"JURNAL PEMULIAAN TANAMAN HUTAN","volume":"133 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"2021-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"JURNAL PEMULIAAN TANAMAN HUTAN","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.20886/jpth.2021.15.2.115-128","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 0
摘要
芳香树是一种具有很高经济价值的树脂生产树种。该树脂已被公认为一种重要的国际贸易商品,广泛应用于香水、化妆品、医药等非木材行业。在其自然栖息地,该物种已被发现在泥炭地和矿物土壤上都能很好地生长,这就提出了一个关于适应分子机制的问题。然而,关于印尼本土树木对非生物胁迫的适应性基因的信息仍然非常有限。本研究分析了在不同培养基和矿质土壤中,能阐明香茅几种上调和下调基因作用的差异表达基因(DEGs)。使用R软件,Bioconductor包'edgeR'进行分析。使用Benjamini和Hochberg方法控制FDR (FDR 0.05), Log 2 FC 2和p值为0.05,结果显示320个contigs上调,439个下调,58129个contigs不显著表达。此外,本研究还综述了参与光合作用、糖酵解、蔗糖和淀粉代谢、激素相关基因、氮代谢、活性氧和转录因子等不同途径的基因。这些信息将有助于了解D.芳香分子对胁迫条件的反应,可用于在育种计划或泥炭地恢复中选择基因型
DIFFERENTIALLY EXPRESSED GENES(DEGS) Dryobalanops aromaticaYANG DITUMBUHKAN PADA MEDIA GAMBUT DAN TANAH MINERAL
Dryobalanops aromaticais a highly economic value resin-producing tree. The resin has been known as an essensialsinternational trade commodity that is widely used in the perfume, cosmetic, medicine, and other non wood industries. In its natural habitats, this species has been found to grow well onbothpeatland and mineral soilsthat has raised a question on the molecular mechanism for adaptation. However, the information regarding adaptive genes in Indonesian native trees to abiotic stress is still very limited. This research was conducted to analyse the differentially expressed genes (DEGs) that can elucidate the role of several up-regulated and down-regulated genes of D. aromaticagrown inpeat media and mineral soil. DEGanalysis was carried out using R software, Bioconductor package 'edgeR'. Using the Benjamini and Hochberg approach to control FDR (FDR 0,05), with a Log₂FC 2 and p-value of 0,05, it showed 320 contigs that were up-regulated and 439 contigs were down-regulated, while 58129 contigs were not significantly expressed. Furthermore, this study also presents an overview of the genes involved in different pathways, such as photosynthesis, glycolysis, sucrose and strarch metabolism, hormone-related genes, nitrogen metabolism, reactive oxygen species and transcription factor. This information will be useful in understanding D. aromaticamolecular responses to stress condition that may be of use for selecting genotypes in the breeding programs or peatlands restoration