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All Journal ANNALES BOGORIENSES Annales Bogorienses Berita Biologi
Vincentia Esti Windiastri, Vincentia Esti
LIPI
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Immunology & microbiology Medicine & Pharmacology

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Phenotypic Screening of Ds transposon and Activation-tag Insertional Mutant Rice Population for Drought and Salinity Tolerant Related Traits Nugroho, Satya; Zannati, Anky; Situmorang, Apriadi; Windiastri, Vincentia Esti; Widyajayantie, Dwi; Pantouw, Carla F.; Astuti, Dwi; Indrayani, Sri; Rahmawati, Syamsidah; Mulyaningsih, Enung Sri; Santoso, Tri Joko; Trijatmiko, Kurniawan Rudi
ANNALES BOGORIENSES Vol 15, No 1 (2011): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.1234/56

Abstract

The studies of rice genes through functional genomics are greatly facilitated by the availability of the complete genome sequences, including the complete physical map of the japonica rice cv. nipponbare. Using the Ac and Ds transposon, that are capable of transposition in various heterologous plants including the monocotyledon rice,  combined with the enhancer element for generating activation taged lines, it is possible to discover and isolate functional genes involved in various important agronomical traits; such as those involved in abiotic stress tolerance (drought, high salt) and biotic stresses diseases and pests. We have developed 1,785 first (T0) generation of mutant nipponbare rice by transposons Ac/Ds insertions containing activation-tag, generated by transformation using Agrobacterium-mediated method. Currently, we have generated approximately 1,000 stable lines with transposon Ds and activation-tag insertion ready for screening. Efficient screening methods for mutant Nipponbare rice lines have been established for agronomically important mutant traits. Among the new phenotypes related to important agronomical traits observed were drought and salt tolerant or sensitive, stunted and robust growth, variable root penetration and other interesting traits such as reduced tillering, rolled leaf and thin tiller.   Keywords: rice, insertion mutant, gene discovery, drought, salinity
Identification of Drought Tolerant Related Insertional Mutant Lines Using PEG 6000 Nugroho, Satya; Windiastri, Vincentia Esti; Widyajayanti, Dwi; Pantouw, Carla Frieda
ANNALES BOGORIENSES Vol 13, No 1 (2009): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.1234/29

Abstract

Drought is one of the most important abiotic stresses in rice (Oryza sativa) productivity. The development of drought tolerant cultivars are therefore highly desireable. We have developed insertional mutant based on the Japonica rice cv Nipponbare rice by transposons Ac/Ds insertions containing activation-tag and gene trap. Screening of the mutant population for drought tolerant related phenotypes is of our priority.  The screening protocol based on PEG 6000 has been developed and was  being used to screen 70 mutant lines to characterize their responds to the treatment based on different parameters (number of leaf, total weight, plant height, root length and number of germinating seeds).  These characters were used to score the Degradation Index  and Vigour Index. Results showed varrying responds of the lines to the osmotic presure.  Some lines showing a good performance indicated by lower Degradation Index and higher Vigour Index have been identified.  Some inconsistencies in the performances scored by both indices were thought to be due to seed quality.   Keywords:  Oryza sativa, insertion mutant, drought, PEG 6000, Degradation Index, Vigor Index.
Identification of Drought Tolerant Related Insertional Mutant Lines Using PEG 6000 Nugroho, Satya; Windiastri, Vincentia Esti; Widyajayanti, Dwi; Pantouw, Carla Frieda
Annales Bogorienses Vol. 13 No. 1 (2009): Annales Bogorienses
Publisher : BRIN

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Drought is one of the most important abiotic stresses in rice (Oryza sativa) productivity. The development of drought tolerant cultivars are therefore highly desireable. We have developed insertional mutant based on the Japonica rice cv Nipponbare rice by transposons Ac/Ds insertions containing activation-tag and gene trap. Screening of the mutant population for drought tolerant related phenotypes is of our priority. The screening protocol based on PEG 6000 has been developed and was being used to screen 70 mutant lines tocharacterize their responds to the treatment based on different parameters (number of leaf, total weight, plant height, root length and number of germinating seeds). These characters were used to score the Degradation Index and Vigour Index. Results showed varyingresponds of the lines to the osmotic pressure. Some lines showing a good performance indicated by lower Degradation Index and higher Vigour Index have been identified. Some inconsistencies in the performances scored by both indices were thought to be due to seed quality.
Phenotypic Screening of Ds Transposon and Activation-tag Insertional Mutant Rice Population for Drought and Salinity Tolerant Related Traits Nugroho, Satya; Zannati, Anky; Situmorang, Apriadi; Windiastri, Vincentia Esti; Widyajayanti, Dwi; Pantouw, Carla Frieda; Astuti, Dwi; Indrayani, Sri; Rachmawati, Syamsidah; Mulyaningsih, Enung Sri; Santoso, Tri Joko; Trijatmiko, Kurniawan Rudi
Annales Bogorienses Vol. 15 No. 1 (2011): Annales Bogorienses
Publisher : BRIN

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

The studies of rice genes through functional genomics are greatly facilitated by the availability of the complete genome sequences, including the complete physical map of the japonica rice cv. nipponbare. Using the Ac and Ds transposon, that are capable of transposition in various heterologous plants including the monocotyledon rice, combined with the enhancer element for generating activation taged lines, it is possible to discover and isolate functional genes involved in various important agronomical traits; such as those involved in abiotic stress tolerance (drought, high salt) and biotic stresses diseases and pests. We have developed 1,785 first (T0) generation of mutant nipponbare rice by transposons Ac/Ds insertions containing activation-tag, generated by transformation using Agrobacterium-mediated method. Currently, we have generated approximately 1,000 stable lines with transposon Ds and activation-tag insertion ready for screening. Efficient screening methods for mutant Nipponbare rice lines have been established for agronomically important mutant traits. Among the new phenotypes related to important agronomical traits observed were drought and salt tolerant or sensitive, stunted and robust growth, variable root penetration and other interesting traits such as reduced tillering, rolled leaf and thin tiller. 
ANALISIS IN SILICO PROTEIN BIOSINTESIS LIGNIN PADA TANAMAN SORGUM (Sorghum bicolor L. Moench) Windiastri, Vincentia Esti; Ardie, Sintho Wahyuning; Nugroho, Satya
Berita Biologi Vol 22 No 2 (2023): Berita Biologi
Publisher : BRIN Publishing (Penerbit BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.55981/beritabiologi.2023.690

Abstract

Lignin adalah bahan alam yang dapat dimanfaatkan sebagai bahan mentah dalam industri biofuel dan bioenergi. Peningkatan produksi lignin mendorong tersedianya sumber lignin terbaharukan dan ramah lingkungan. Sorgum berpotensi digunakan sebagai sumber biomassa untuk produksi lignin. Produksi lignoselulosa dari sorgum per tahunnya mencapai 19–47 ton/ha. Meskipun demikian, untuk memanfaatan sorgum sebagai sumber lignin secara optimal diperlukan peningkatan kandungan total lignin pada tanaman sorgum. Rekayasa genetika dalam modifikasi kandungan lignin dapat menjadi jawaban. Namun, informasi mengenai gen biosintesis lignin masih terbatas. Untuk memperoleh informasi protein biosintesis lignin pada sorgum (Sorghum bicolor L.Moench) dan protein homolognya dari tanaman monokotil yang lain, analisis bioinformatika mengenai protein biosintesis lignin telah dilakukan. Analisis dilakukan menggunakan program Blast-p, Mega-X, Conserved Domain Database, InterPro dan MEME. Hasil dari analisis yang dilakukan menggambarkan bahwa protein biosintesis lignin membentuk klaster searah dengan arah divergensi taksonomi tanaman monokotil. Protein lignin dari sorgum mengelompok bersama Mischanthus, tebu dan jagung. Pohon kekerabatan protein COMT menghasilkan bootstrap tertinggi untuk protein lignin sorgum di antara pohon filogeni protein-protein yang lain. Hasil penyejajaran keluarga protein COMT sorgum (XP_002445083.1) dengan protein COMT dari Mischanthus, tebu, jagung dan Arabidopsis menunjukkan bahwa protein XP_002445083.1 mempunyai karakter fungsional yang saling mirip. Sehingga dapat disimpulkan bahwa XP_002445083.1 diduga adalah protein COMT dari sorgum.
ANALISIS EKSPRESI RELATIF DAN PENYEJAJARAN GEN Bmr12 PADA AKSESI SORGUM (Sorghum bicolor L. Moench) Windiastri, Vincentia Esti; Sintho Wahyuning Ardie; Miyamoto, Takuji; Umezawa, Toshiaki; Satya Nugroho
Berita Biologi Vol 23 No 3 (2024): Berita Biologi
Publisher : BRIN Publishing (Penerbit BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.55981/berita_biologi.2024.952

Abstract

Gen Bmr12 (SbCOMT) diperkirakan mempunyai fungsi dalam penentuan kandungan total lignin pada sorgum karena mutasi gen Bmr12 menyebabkan kandungan total lignin tanaman mutan tereduksi. Pada penelitian sebelumnya telah dikelompokkan aksesi-aksesi sorgum di Indonesia berdasarkan kandungan lignin tinggi dan lignin rendah (Buleleng Empok, JP dan Pahat). Untuk mengetahui pola ekspresi gen Bmr12 pada kedua kelompok sorgum yang berbeda, maka dilakukan analisis level ekspresi relatif dari sorgum berlignin tinggi yang diwakili oleh aksesi KS, 4183, dan SMM; dan sorgum berlignin rendah yang diwakili oleh aksesi Buleleng Empok, JP dan Pahat. Sebagai data pendukung, dilakukan pula perunutan gen Bmr12 yang diisolasi dari aksesi KS, 4183, Buleleng Empok dan Pahat. Hasil analisis tersebut memperlihatkan adanya perbedaan pola ekspresi gen Bmr12. Level tertinggi ada pada aksesi 4183A, dan yang terendah adalah aksesi Pahat. Keempat aksesi lainnya mempunyai pola ekspresi yang hamper sama. Perunutan dan penyejajaran gen Bmr12 memperlihatkan adanya substitusi basa nitrogen yang mengarah ke substitusi asam amino pada aksesi KS. Namun substitusi tersebut tidak mengganggu fungsi gen Bmr12 dalam biosintesis lignin.
Co-Authors Anky Zannati Apriadi Situmorang Dwi Astuti Dwi Widyajayantie Enung Sri Mulyaningsih Kurniawan Rudi Trijatmiko, Kurniawan Rudi Miyamoto, Takuji Pantouw, Carla F. Pantouw, Carla Frieda Pantouw, Carla Frieda Rachmawati, Syamsidah Satya Nugroho Satya Nugroho Sintho Wahyuning Ardie Sri Indrayani, Sri Syamsidah Rahmawati, Syamsidah TRI JOKO SANTOSO Umezawa, Toshiaki Widyajayanti, Dwi Widyajayanti, Dwi