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All Journal AL KAUNIYAH Berkala Ilmiah Pertanian Indonesian Journal of Biotechnology AJIE (Asian Journal of Innovation and Entrepreneurship) Jurnal Bioteknologi & Biosains Indonesia (JBBI) Jurnal Pengabdian Magister Pendidikan IPA Jurnal Abdimas Madani dan Lestari (JAMALI) Agroradix : Jurnal Ilmu Pertanian
Wahyu Indra Duwi Fanata
Program Studi Agroteknologi, Fakultas Pertanian, Universitas Jember, Jl. Kalimantan No.37 , Kabupaten Jember
Agriculture, Biological Sciences & Forestry Humanities Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Civil Engineering, Building, Construction & Architecture Computer Science & IT Economics, Econometrics & Finance Education Environmental Science Immunology & microbiology Materials Science & Nanotechnology Other

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Journal : Indonesian Journal of Biotechnology

 1 
Unfolded protein response in rice (Oryza sativa L.) varieties with different level of salt stress tolerance Galang Rizki Ramadhan; Sholeh Avivi; Bambang Sugiharto; Wahyu Indra Duwi Fanata
Indonesian Journal of Biotechnology Vol 26, No 3 (2021)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.67039

Abstract

Plants activate the unfolded protein response as part of cellular adaptation, thereby maintaining the endoplasmic reticulum homeostasis during external stresses exposure. In this study, we examined the relationship between the degree of salt tolerance and unfolded protein response-related gene expression in India salt-tolerant Pokkali and INPARI 35 varieties compared to the Indica salt-sensitive counterpart IR64 and INPARI 4 varieties.  Our result showed that the salt tolerance of Pokkali and INPARI 35 had been confirmed by their higher survival rate, higher chlorophyll content, lower electrolyte leakage, and lower H2O2 and malondialdehyde content under salt stress conditions. Furthermore, the expression of unfolded protein response genes was highest in INPARI 35, whereas IR64 and INPARI 4 exhibited low gene induction during endoplasmic reticulum stress conditions. Among the four examined varieties the salt tolerant Pokkali surprisingly showed the lowest induction of all examined unfolded protein response-related genes. These results indicated the possibility that unfolded protein response supports the rice plant for adapting to the saline environment.
Expression of cytokinin responsive and ethylene biosynthesis genes in rice callus with different regeneration rates Syafira Fatihatul Husna; Parawita Dewanti; Bambang Sugiharto; Wahyu Indra Duwi Fanata
Indonesian Journal of Biotechnology Vol 27, No 2 (2022)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.70264

Abstract

This study aimed to investigate the correlation between callus regeneration rate and the expression of several genes responsible for cytokinin response and ethylene biosynthesis in the Ciherang, Mentik Wangi Susu, Hwayoung and Tarabas rice varieties. The callus regeneration rate of each rice variety was in vitro tested using N6 media, while the gene expression during the callus regeneration stages was examined using quantitative real‐time PCR (qRT‐PCR). Our results showed that the callus of Ciherang and Mentik Wangi Susu showed earlier green spot formation that then turned brown at a later stage, resulting in a low regeneration rate. While Hwayoung and Tarabas showed late green spot formation, high shoot regeneration was observed in both calluses. Gene expression analysis of regeneration media‐grown calluses showed that two cytokinin‐responsive genes, OsRR2 and OsRR6, were highly expressed in the Ciherang and Hwayoung callus, respectively. We also observed that ethylene biosynthesis genes such as OsACS1 and OsACO1 were highly expressed in the Mentik Wangi Susu and Hwayoung callus, respectively. Moreover, the expression of OsBBM1 was high in Hwayoung and Tarabas. Thus, the positive correlation between the expression of cytokinin‐responsive and ethylene biosynthesis genes with somatic embryogenesis activity likely depends on the induction level of OsBBM1.
Resistance gene expression in selected Indonesian pigmented rice varieties against infection by Xanthomonas oryzae pv. oryzae Nur Elia Nadhira; Ali Wafa; Wahyu Indra Duwi Fanata; Hardian Susilo Addy
Indonesian Journal of Biotechnology Vol 27, No 2 (2022)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.70445

Abstract

Rice (Oryza sativa L.) production is limited by bacterial leaf blight (BLB), caused by Xanthomonas oryzae pv. oryzae (Xoo). For decades, researchers have attempted to control this disease by growing plants with blight‐resistant Xa genes. Genetic resources often vary between rice varieties, and there is little information about the genetic resources of the pigmented rice varieties widely grown in Indonesia and their resistance genes against Xoo. The purpose of this study was to determine the expression of Xa genes in pigmented rice such as Inpari 24 and Cempo Merah (red‐pigmented) along with Hitam Bantul (black‐pigmented) and white rice varieties IR64 and Ciherang, and to evaluate their resistance to BLB. All varieties carried the Xa4, Xa10 and xa13 genes but varied in the Xa1, Xa7 and Xa21 genes. The rice varieties expressed some of these genes only after inoculation with Xoo. Disease assessment categorised the three different pigmented rice varieties as resistant (Ciherang, Cempo Merah and Hitam Bantul), while IR64 (white) and Inpari 24 (red) were moderately resistant. There was no specific pattern of Xa genes possession, quality of expression or resistance level to X. oryzae pv. oryzae. Therefore, when breeding plants, the selection of parental variety must be considered in terms of the possession and expression of Xa genes such as Xa10 as a molecular marker for resistance.
Co-Authors Ahmad Ilham Tanzil Ahmad Ilham Tanzil Ali Wafa Bambang Sugiharto Bambang Sugiharto Dalliyah Hadrotul Qudsiyah Dalliyah Hadrotul Qudsiyah Danar Musi Pawarta Febrian Puji Laksono Galang Rizki Ramadhan HARDIAN SUSILO ADDY Illia Seldon Magfi Mohammad Nizar Sahadati Amri NIKEN SULISTYANINGSIH Nilasari Dewi Novita Indah Kartika Sari Nur Elia Nadhira Nur Lailin Nafiah Parawita Dewanti Puji Rahayu Raudhotun Jamila Refa Firgiyanto Restanto, Didik Pudji Sholeh Avivi Subroto, Gatot Syafira Fatihatul Husna Tri Ratnasari Tri Ratnasari Ummi Sholikhah Ummi Sholikhah Widianingrum, Desy Cahya Yusuf Rachmandhika Zaiyin Rizky Ageng Maulidia