IJPMBS 2026 Vol.15(4): 114-119
doi: 10.18178/ijpmbs.15.4.114-119
doi: 10.18178/ijpmbs.15.4.114-119
Optimizing RNA Isolation from Durian Leaves and Evaluating the Effect of DNase Treatment on RNA-seq Transcriptomes
C. Chumchujan1, P. Pinsorn2, K. Thawornwiriyanan3, N. Sudyoung4, and
S. Sarawaneeyaruk1,*
1. Department of Microbiology, Faculty of Science, Srinakharinwirot University, Bangkok, Thailand
2. Center of Excellence in Molecular Crop, Department of Biochemistry, Faculty of Science, Chulalongkorn University, Bangkok, Thailand
3. Wonder Framer Co.Ltd. (WonderSeq), Bangkok, Thailand
4. Department of Biotechnology and Agricultural Products, Faculty of Agricultural Product Innovation and Technology, Srinakharinwirot University, Nakhon Nayok, Thailand
hakrin.chumchujan@g.swu.ac.th (C.C.); p.pinnapat@gmail.com (P.P.); kanokwan.thawornwiriyanan@gmail.com (K.T.); natthidas@g.swu.ac.th (N.S.); siriruk@g.swu.ac.th (S.S.)
*Corresponding author
2. Center of Excellence in Molecular Crop, Department of Biochemistry, Faculty of Science, Chulalongkorn University, Bangkok, Thailand
3. Wonder Framer Co.Ltd. (WonderSeq), Bangkok, Thailand
4. Department of Biotechnology and Agricultural Products, Faculty of Agricultural Product Innovation and Technology, Srinakharinwirot University, Nakhon Nayok, Thailand
hakrin.chumchujan@g.swu.ac.th (C.C.); p.pinnapat@gmail.com (P.P.); kanokwan.thawornwiriyanan@gmail.com (K.T.); natthidas@g.swu.ac.th (N.S.); siriruk@g.swu.ac.th (S.S.)
*Corresponding author
Manuscript received May 6, 2026; accepted August 18, 2026; published October 20, 2026.
Abstract—RNA extraction from durian (Durio zibethinus L.) leaves is hindered by latex and abundant polyphenols and polysaccharides. Here, we optimized a TRIzol-based workflow specifically for durian leaves and systematically assessed whether a post-extraction DNase workflow alters mRNA-seq profiles under RIN-matched conditions. Of four workflows tested, only a modified TRIzol method incorporating Polyvinylpyrrolidone (PVP), β-mercaptoethanol, and isopropanol precipitation consistently produced high-purity, intact RNA, whereas DNase treatment reduced RNA yield. RIN-matched RNA samples generated comparable sequencing output and quality. Despite similar sequencing quality, Principal Component Analysis (PCA) clearly separated DNase-treated and non-treated libraries. DNase-associated differences were enriched in signaling and regulatory functions as well as stress- and defense-related pathways. Overall, this study provides a practical RNA extraction strategy for durian leaves and shows that DNase treatment can measurably shift isoform-level expression in RNA-seq analyses.
Keywords—Trizol, PVP, CTAB, transcriptome, mRNA sequencing
Cite: C. Chumchujan, P. Pinsorn, K. Thawornwiriyanan, N. Sudyoung, and S. Sarawaneeyaruk, "Optimizing RNA Isolation from Durian Leaves and Evaluating the Effect of DNase Treatment on RNA-seq Transcriptomes," International Journal of Pharma Medicine and Biological Sciences, Vol. 15, No. 4, pp. 114-119, 2026.
Copyright © 2026 by the authors. This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).
Keywords—Trizol, PVP, CTAB, transcriptome, mRNA sequencing
Cite: C. Chumchujan, P. Pinsorn, K. Thawornwiriyanan, N. Sudyoung, and S. Sarawaneeyaruk, "Optimizing RNA Isolation from Durian Leaves and Evaluating the Effect of DNase Treatment on RNA-seq Transcriptomes," International Journal of Pharma Medicine and Biological Sciences, Vol. 15, No. 4, pp. 114-119, 2026.
Copyright © 2026 by the authors. This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).
