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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Agrohorti Bulletin (e-Journal) Jurnal Hortikultura Indonesia Buletin Hama dan Penyakit Tumbuhan Zuriat MIMBAR (Jurnal Sosial dan Pembangunan) Jurnal Natur Indonesia Microbiology Indonesia Biota: Jurnal Ilmiah Ilmu-Ilmu Hayati Indonesian Journal of Agricultural Science Jurnal AgroBiogen Jurnal Pengkajian dan Pengembangan Teknologi Pertanian Jurnal Penelitian Tanaman Industri Jurnal Tanaman Industri dan Penyegar Wacana, Jurnal Sosial dan Humaniora Jurnal RISET Geologi dan Pertambangan AGRIVITA, Journal of Agricultural Science Jurnal NERS Jurnal Agroekoteknologi International Journal of Sustainable Tropical Agricultural Sciences Indonesian Journal of Biotechnology UNEJ e-Proceeding Jurnal Penelitian Karet JURNAL HAMA DAN PENYAKIT TUMBUHAN TROPIKA Jurnal Bioteknologi & Biosains Indonesia (JBBI) ANNALES BOGORIENSES Constitutional Review ICoTE Proceedings Majalah Ilmiah Biologi BIOSFERA: A Scientific Journal Jurnal Penelitian Kelapa Sawit Journal of Tropical Crop Science Menara Perkebunan Berkala Penelitian Agronomi Journal of English Language Teaching Innovations and Materials (Jeltim) JIIP (Jurnal Ilmiah Ilmu Pendidikan) Jurnal Tanah dan Iklim Jurnal Agrotropika Budapest International Research and Critics Institute-Journal (BIRCI-Journal): Humanities and Social Sciences Jurnal Ilmiah Ibnu Sina (JIIS): Ilmu Farmasi dan Kesehatan Jurnal Pengabdian Ilung (Inovasi Lahan Basah Unggul) Journal of General-Procedural Dermatology & Venereology Indonesia Jurnal Edukasi Biologi
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Departemen Agronomi Dan Hortikultura Fakultas Pertanian, Institut Pertanian Bogor
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Journal : Jurnal Bioteknologi

 1 
ANALISIS BIOINFORMATIKA BERBASIS WEB PADA SEKUEN GENOM PARSIAL SAGU (Metroxylon sagu Rottb.) Purwoko, Devit; Cartealy, Imam Civi; Tajuddin, Teuku; Dinarti, Diny; Sudarsono, Sudarsono
Jurnal Bioteknologi & Biosains Indonesia (JBBI) Vol 5, No 1 (2018): June 2018
Publisher : Badan Pengkajian dan Penerapan Teknologi (BPPT)

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1161.678 KB) | DOI: 10.29122/jbbi.v5i1.2878

Abstract

WEB-based bioinformatic analysis on partial genome sequence of Sago (Metroxylon sagu Rottb.)ABSTRACTSago genome sequencing analysis is still very limited. This study is a preliminary study of sago sequence analysis obtained from NGS technology to understand and identify new genetic sequences that have homology to genes in the NCBI database. Sequences were analyzed using Blast2Go to determine the genetic function annotation, putative gene identification was performed on the Arabidopsis database using the BLASTx program with a 10-3 e-value limit on The Arabidopsis Information Resource (TAIR) (http://www.arabidopsis.org/index.jsp). Gene interactions were analyzed using DAVID and GeneMania programs. Based on sequence analysis with Blast2Go, 33 sequences with Blastx hit consisting of: 29 sequences had a high homology. The sago sequences with a similarity of ≥ 90% are glutamate decarboxylase and HT1-like serine threonine kinase with hit number 10. The distribution of interactions between genes from GeneMania analysis is known to be mostly interconnected in the 65.13% protein domain, predicted 19.83%, genes with 14.47% shared expression and the remaining 0.57% had localization together.Keywords: bioinformatics, gene annotation, gene ontology, genome sequence, Metroxylon sagu ABSTRAKKajian analisis sekuen genom sagu hingga saat ini masih amat terbatas. Penelitian ini merupakan riset pendahuluan analisis sekuen sagu yang diperoleh dari teknologi NGS untuk mengetahui dan mengidentifikasi sekuen gen baru yang memiliki homologi dengan gen pada database NCBI. Sekuen dianalisis menggunakan perangkat Blast2Go untuk mengetahui anotasi fungsional gen, identifikasi gen putatif dilakukan terhadap database Arabidopsis menggunakan program BLASTx dengan batas e-value 10-3 pada The Arabidopsis Information Resource (TAIR). Interaksi gen dianalisis menggunakan program DAVID dan GeneMania. Berdasarkan analisis sekuen dengan Blast2Go, diperoleh 33 sekuen dengan Blastx hit yang terdiri atas: 29 sekuen memiliki homologi yang tinggi. Gen dengan rataan kemiripan ≥ 90% adalah glutamate decarboxylase dan serine threonine-kinase HT1-like dengan jumlah hit 10. Persebaran interaksi antar gen hasil analisis GeneMania diketahui sebagian besar saling terkait pada domain protein 65,13%, koneksi yang berhasil diprediksi 19,83%, gen dengan ekspresi bersama 14,47% dan sisanya 0,57% memiliki peranan bersama. Kata Kunci: anotasi gen, bioinformatika, Metroxylon sagu, ontologi gen, sekuen genome 
ANALISIS BIOINFORMATIKA BERBASIS WEB PADA SEKUEN GENOM PARSIAL SAGU (Metroxylon sagu Rottb.) Purwoko, Devit; Cartealy, Imam Civi; Tajuddin, Teuku; Dinarti, Diny; Sudarsono, Sudarsono
Jurnal Bioteknologi & Biosains Indonesia (JBBI) Vol. 5 No. 1 (2018): June 2018
Publisher : Balai Bioteknologi, Badan Pengkajian dan Penerapan Teknologi (BPPT)

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1161.678 KB) | DOI: 10.29122/jbbi.v5i1.2878

Abstract

WEB-based bioinformatic analysis on partial genome sequence of Sago (Metroxylon sagu Rottb.)ABSTRACTSago genome sequencing analysis is still very limited. This study is a preliminary study of sago sequence analysis obtained from NGS technology to understand and identify new genetic sequences that have homology to genes in the NCBI database. Sequences were analyzed using Blast2Go to determine the genetic function annotation, putative gene identification was performed on the Arabidopsis database using the BLASTx program with a 10-3 e-value limit on The Arabidopsis Information Resource (TAIR) (http://www.arabidopsis.org/index.jsp). Gene interactions were analyzed using DAVID and GeneMania programs. Based on sequence analysis with Blast2Go, 33 sequences with Blastx hit consisting of: 29 sequences had a high homology. The sago sequences with a similarity of ≥ 90% are glutamate decarboxylase and HT1-like serine threonine kinase with hit number 10. The distribution of interactions between genes from GeneMania analysis is known to be mostly interconnected in the 65.13% protein domain, predicted 19.83%, genes with 14.47% shared expression and the remaining 0.57% had localization together.Keywords: bioinformatics, gene annotation, gene ontology, genome sequence, Metroxylon sagu ABSTRAKKajian analisis sekuen genom sagu hingga saat ini masih amat terbatas. Penelitian ini merupakan riset pendahuluan analisis sekuen sagu yang diperoleh dari teknologi NGS untuk mengetahui dan mengidentifikasi sekuen gen baru yang memiliki homologi dengan gen pada database NCBI. Sekuen dianalisis menggunakan perangkat Blast2Go untuk mengetahui anotasi fungsional gen, identifikasi gen putatif dilakukan terhadap database Arabidopsis menggunakan program BLASTx dengan batas e-value 10-3 pada The Arabidopsis Information Resource (TAIR). Interaksi gen dianalisis menggunakan program DAVID dan GeneMania. Berdasarkan analisis sekuen dengan Blast2Go, diperoleh 33 sekuen dengan Blastx hit yang terdiri atas: 29 sekuen memiliki homologi yang tinggi. Gen dengan rataan kemiripan ≥ 90% adalah glutamate decarboxylase dan serine threonine-kinase HT1-like dengan jumlah hit 10. Persebaran interaksi antar gen hasil analisis GeneMania diketahui sebagian besar saling terkait pada domain protein 65,13%, koneksi yang berhasil diprediksi 19,83%, gen dengan ekspresi bersama 14,47% dan sisanya 0,57% memiliki peranan bersama. Kata Kunci: anotasi gen, bioinformatika, Metroxylon sagu, ontologi gen, sekuen genome 
Co-Authors , Agustiansyah , Rustikawati , Sukendah , Triadiati , Witjaksono ABDUL RACHMAD BUDIONO Ade Wachjar Adisyahputra Adisyahputra, Adisyahputra Agung Endro Nugroho Agus Purwito Agus Rachmat AHMAD RIDUAN Ahmad Surkati Ali Husni Amarillis, Shandra Amarullah, Muhamad Roffi Andrie Al Kausar Anita Yuliyanti Aniversari Apriana Anneke Pesik Anwar, Aswaldi Aprizal Zainal Arfan Nazhri Simamora Arief Hidayat Aris Munandar Asep Setiawan ASMONO, DWI Atmitri Sisharmini Bambang Heliyanto Bambang S. Purwoko BAMBANG SUGIRI Barahima Abbas C J Soegihardjo Cartealy, Imam Civi Cartealy, Imam Civi Catur Herison Cecep Kusmana Christoph Leuschner Clarry Sada Colleen M. Higgins, Colleen M. Darmawan Saptadi Deka Rotama Dewi Sukma Didiek Hadjar Goenadi Diky Anggoro DINARTY, DINY Dini Dinarty, Dini DINI NURDIANI Diny Dinarti Djoko Santoso DWI ANDREAS SANTOSA Dwi Asmono DWI HAPSORO Dwi Hapsoro Edi Guhardja Efendi, Darda Elina, Juanita ELSJE T. TENDA, ELSJE T. Endang Pudjihartati Endrizal Eneng Fakhrunnisa Enni Suwarsi Rahayu Erick Raynalta, Erick Fajar Laksono Suroso Fakhrunnisa, Eneng Fatsan, Ahmad FETRINA OKTAVIA Germini Alam Giyanto . Gusti Ayu Kade Sutariati H. M.H. Bintoro Djoefrie HAJRIAL ASWIDINNOOR Harsini ,, Harsini Hartati, Raden Roro Sri Haryadi Permana Hasriadi Mat Akin Hengky Novarianto Hengky Novarianto Hidayat Pawitan Hiroshi Ehara Hugo Volkaert, Hugo I MADE ARTIKA IBNUL QAYIM IDA HANARIDA SOMANTRI Iim Fatimah Ika Mariska Ikhsanudin Ikhsanudin Irman Firmansyah Ismail Maskromo Ismail Maskromo Iwa Sutardjo, Iwa Iwan Setiawan JAJAH KOSWARA Juang Gema Kartika Jumanto Jumanto Jumanto Jumanto, Jumanto Khoerul Anwar Khursatul Munibah Kukuh Murtilaksono Kukuh Setiawan Kurniasari, Praharisti Kurniawan R. Trijatmiko Kusumo Nugroho Kuswanhadi Kuswanhadi, Kuswanhadi Laksmita Prima Santi Laksono Trisnantoro Lila Yuwana Lollie Agustina P. Putri M. Herman Marbelisa Briliani Mardikaningsih, Agusti Marenda Ishak S MASKROMO, ISMAIL MEITY A. TULALO, MEITY A. Memen Surahman Meynarti Sari Dewi Ibrahim Muchammad Ali Safaat Muhammad Hasyim Bintoro Muhammad Herman MUHAMMAD HERMAN Muhammad Machmud Muhammad Machmud Mutia Dewi Yuniati Neviana Wahyuni Nihayati, Hanik Endang Niniet Indah Arvitrida Noor Cahaya NOVARIANTO, HENGKY Nur Khayati Nurhajati A. Mattjik Nursalam Nursalam Nurul Khumaida Paulus B.K. Santoso Purwaningsih Purwaningsih purwoko, devit Purwoko, Devit R B Gobel Ralf G. Dietzgen, Ralf G. Reni Indrayanti ROEDHY POERWANTO Rr Sri Hartati Rr Sri Hartati, Rr Sri Rr. Sri Hartati Rubiyo Rubiyo RULLY DYAH PURWATI RUSMILAH SUSENO S. Arsyad S. Ilyas Said Harran Saiful Akhyar Lubis SATRIYAS ILYAS Satriyas Ilyas Satya Nugroho Shinta Hadiyantina Sholeh Avivi Siswanto Siswanto Siti Mufidah Siti Sunarintyas SOEKISMAN TJITROSEMITO Sri H. Hidayat Sri H. Hidayat Sri H. Hidayat Sri Indarto Sri S. Harjadi Sri Soenarsih DAS Stephanie Wilamarta Sudari, Sudari Sudibyo Martono Sudirman Yahya SUDJINDRO SUDJINDRO Sugiyanta Sukendah S, Sukendah SUKENDAH SUKENDAH, SUKENDAH Sumali Wiryowidagdo Suryo Wiyono Susilo Indrawati Swastika, Maria Syafaruddin Syafaruddin TENDA, ELSJE T. Teuku Tajuddin TINCHE, nFn Tri J. Santoso Tri J. Santoso Tri Joko Santoso Tri Joko Santoso U.S WIRADISASTRA UJANG KHAIRUL Urai Salam Visia Assyafira Suwarto vyta andri setyo utami Wening Enggarini Widiatmaka . Widiatmaka Widiatmaka Widodo Widodo Wiwin Ambarwulan Yudiwanti Wahyu E. K. Yulis Setiya Dewi Yundari, Yundari Yuni Wibowo Yusnita Yusnita