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INDONESIA
Jurnal AgroBiogen
Published by Kementerian Pertanian
ISSN : 19071094     EISSN : 25491547     DOI : -
Core Subject : Agriculture,
Agriculture, Biological Sciences & Forestry
Jurnal AgroBiogen memuat artikel primer dan sekunder hasil penelitian bioteknologi dan sumberdaya genetik tanaman, serangga, dan mikroba pertanian. Jurnal ini diterbitkan tiga kali setahun pada bulan April, Agustus dan Oktober oleh Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumberdaya Genetik Pertanian
Arjuna Subject : -
Articles 252 Documents
 8   9   10   11   12 
Phylogenetic and Maturity Analyses of Sixty Soybean Genotypes Used for DNA Marker Development of Early Maturity Quantitative Trait Loci in Soybean I Made Tasma; Dani Satyawan; Ahmad Warsun; Muhamad Yunus; Budi Santosa
Jurnal AgroBiogen Vol 7, No 1 (2011): April
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v7n1.2011.p37-46

Abstract

Phylogenetic and Maturity Analyses of Sixty SoybeanGenotypes Used for DNA Marker Development of EarlyMaturity Quantitative Trait Loci in Soybean. I MadeTasma, Dani Satyawan, Ahmad Warsun, MuhamadYunus, and Budi Santosa. The Indonesian soybeanproductivity is still very low with the national average of 1.3t/ha. One means to improve national soybean productivity isby manipulating harvest index by cultivating very earlymaturing soybean cultivars. Development of early maturingsoybean cultivars can be expedited by using marker-aidedselection. The objective of this study was to select parentallines having contrasted maturity traits and selected parentsmust be genetically distance. The parents then were used todevelop F2 populations for detecting early maturity QTL insoybean. Maturity tests of 60 soybean genotypes wereconducted at two locations, Cikeumeuh (Bogor) and Pacet(Cianjur) using a randomized block design with threereplications. Genomic DNA of the 60 genotypes wereanalyzed using 18 SSR markers and genetic relationship wasconstructed using the Unweighted Pair-Group MethodArithmatic through Numerical Taxonomy and MultivariateSystem program version 2.1-pc. Results showed that the 60genotypes demonstrated normal distribution in bothlocations for days to R1 (32-48d), days to R3 (35-55d), days toR7 (75-92d), and days to R8 (78-99d). Four early maturinggenotypes and three late genotypes were obtained. TotalSSR alleles observed were 237 with average allele per locusof 12.6 (3-29), and average PIC value of 0.78 (0.55-0.89).Genetic similarity among genotypes ranges from 74.8-95%.At similarity level 77% divided the genotypes into six clusters(the four selected early maturing genotypes located inclusters III and IV, while the three late genotypes located incluster II). Based on maturity data, pubescent color, andphygenetic analysis seven parents were selected (four earlymaturing genotypes B1430, B2973, B3611, B4433 and threelate genotypes B1635, B1658, and B3570). Twelve F2populations were developed with the aid of SSR markersSatt300 dan Satt516. Two of the populations will be used todevelop DNA markers for earliness in soybean.
Struktur Populasi Trichogrammatoidea armigera, Parasitoid Telur Helicoverpa armigera, Berdasarkan Analisis RAPD-PCR Bahagiawati Amir Husin; Damayanti Buchari; Nurindah Nurindah; Habib Rizjaani; Dwinita Wikan Utami; B. Sahari; A. Sari
Jurnal AgroBiogen Vol 2, No 2 (2006): Oktober
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v2n2.2006.p52-59

Abstract

Population Structure of Trichogrammatoidea armigera,Egg Parasitoid of Helicoverpa armigera Based on RAPDPCRAnalysis. Bahagiawati, Damayanti Buchari, Nurindah,H. Rizjaani, Dwinita W. Utami, B. Sahari, and A.Sari. Genetic structures of Trichogrammatoidea armigera(Hymenoptera: Trichogrammatidae), the egg parasitoid ofHelicoverpa armigera (Lepidoptera: Noctuidae) were studied.Egg masses of H. armigera were collected from fields ofseveral locations in West Java and East Java with differentdistances among them and two distinct cultural practices,i.e., monoculture and polyculture. Genetic relationshipsamong T. armigera populations that emerged from the collectedH. armigera eggs were analysed by the RAPD-PCRtechnique using four oligonucleotide primers. The fourprimers revealed 55 presumptive polymorphic loci that wereused to estimate the population structures. The estimatedvalues of Fixation Index (Fst) was 0.16, indicating that therewas a division of the populations into subpopulations. ThisFst value implied the present of reproductive isolationamong the populations that might be due to their lowmigration rate (1.3 insect per generation). This low migrationrate indicated the present of low level of gene flow amongthe populations. A dendrogram resulted from the NTSYSanalysis indicated that the West Java and East Java populationsof the egg parasitoid had quite wide genetic distances,while within each of the populations there was a subdivisionof minor populations. This finding has an important implicationon the program to release Trichogramma spp. as a biologicalcontrol agent. The release of the parasitoid cannot bedone randomly, because if we pick up a minor population,the starter or the released population will mate with thelocal population and multiply, thus the inundation will fail tocontrol the target pest.
Pengaruh Iradiasi Sinar Gamma pada Pertumbuhan Kalus dan Keragaman Planlet Tanaman Nilam Abdul Kadir; Surjono H Sutjahjo; Gustav A Wattimena; Ika Mariska
Jurnal AgroBiogen Vol 3, No 1 (2007): April
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v3n1.2007.p24-31

Abstract

The Effect of Gamma Irradiation on Calli Growth andPatchouly Planlet Variation. Abdul Kadir, Surjono H.Sutjahjo, Gustav A. Wattimena, and Ika Mariska. Thisresearch was objected to study the effect of gamma irradiationon growth of calli and plantlet and phenotypic variationof patchouly plantlet. Research was conducted at the TissueCulture Laboratory of Center for Agricultural Biotechnologyand Genetic Resources Research and Development, Bogor.Gamma irradiation treatment was done at the Centre for Researchand Development of Isotop and Radiation Technology,BATAN, Jakarta. The treatment consisted of 5 level ofirradiation i.e. 0 (control), 5, 10, 15, and 20 Gy of gamma irradiation.The result showed that gamma irradiation of 20 Gydecrease calli quality index and increased percentage ofcalli death and inhibited calli growth at 30, 60 and 90 daysafter irradiation, also decrese number of shoots. Gamma irradiationof 5 Gy and 10 Gy increased growth planletcompared 15 Gy and 20 Gy, meanwhile gamma irradiation at20 Gy induced high frequency of phenotypic variation ofpatchouly plantlet.
Survei Polimorfisme Tetua untuk Pengembangan Panel CSSL Padi (Oryza sativa L.) dan Identifikasi Tanaman F1 Mariana Susilowati; Panjisakti Basunanda; Wening Enggraini; Ma'sumah Ma'sumah; Kurniawan R. Trijatmiko
Jurnal AgroBiogen Vol 10, No 3 (2014): Desember
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v10n3.2014.p85-92

Abstract

Raising yield potential of modernindica varieties is essential to meet the increased demand ofrice production. This is due to increased human population,threats of climate change and degradation of agriculturalresources. The use of chromosome segment substitutionlines (CSSL) is more effective for identification of genesthose are useful for improvement of yield potential. The aimsof this study were to observe the morphological traitdifferences between recipient parent (var. Ciherang) andthree candidates of donor parent (var. Fatmawati and newplant type lines, i.e. B12743 and B11143D), to identifypolymorphic SSR markers among them and to verify F1individuals. Ciherang and B11143D showed significantdifferences on flowering time, plant height, flag leaf area,tiller number, productive tiller number, panicle length,spikelet number per panicle and 1,000 grain weight. The rateof SSR marker polymorphisms between Ciherang andB11143D was the highest, where 155 of 513 markers (30.2%)were polymorphic. Marker genotyping using threepolymorphic markers showed that 26 of 27 plants resultedfrom the cross of Ciherang х B11143D were F1. These F1plants could become the basis of CSSL panel that facilitatethe mapping of genes responsible for increasing the yieldpotential.
Kriopreservasi untuk Konservasi Plasma Nutfah Tanaman: Peluang Pemanfaatannya di Indonesia Semuel Leunufna
Jurnal AgroBiogen Vol 3, No 2 (2007): Oktober
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v3n2.2007.p80-88

Abstract

Increasing rate of plant germplasm lost inIndonesia has promoted the implementation of variousmethods for their conservation. Cryopreservation is a techniqueapplicable for a long-term preservation (base collection)of plants possessing non-orthodox (recalcitrant andsemi-recalcitrant) seeds and those propagated vegetatively.The technique can be used as an alternative method fororthodox seed plants preservation in the ex situ conservationsystem. Although field and in vitro collection methods canbe applied for the non-orthodox seed plants, a number ofdisadvantages possesed by these methods, especially in thetropics or the developing countries, deny their use for theestablishment of a long-term germplasm collection. Successfulimplementation of the cryopreservation technique issupported by the development of protocols, which are ableto provide a high recovery rate for species understudy, usingvitrification based methods which are simple, economical,applicable to complex organs, and able to implement a highnumber of explants per experiment. The availability of infrastructuresincluding in vitro culture laboratories, continuesupply of liquid nitrogen is highly supporting the use ofcryopreservation technique in Indonesia.
Penentuan Alergenisitas Protein Gen RB pada Kentang Produk Rekayasa Genetika Berdasarkan Studi Bioinformatika Eny Ida Riyanti; Edy Listanto; A. Dinar Ambarwati
Jurnal AgroBiogen Vol 11, No 3 (2015): Desember
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v11n3.2015.p81-86

Abstract

Genetically modified products (GMP) of Katahdin potato event SP951 containing RB gene resistant to late blight diseasescaused by Phytophtora infestans has been developed in the USA. This Katahdin SP951 potato has been crossed with localvarieties Atlantic and Granola for its development in Indonesia. In the release process, the GMP potato should be tested forenvironmental and food safety. One of the food safety assessment needs to be done by determining allergenicity of RB proteinwhether it is potential as allergen. This research aims to translate the RB gene sequence into RB protein sequence andinvestigate the potential RB protein as an allergen through bioinformatic studies. This study was performed based on thealignment with available protein allergens from available database websites. The predicted RB protein obtained from 2,913amino acids RB gene was a 971 amino acids length protein with ATG as a start codon and TAA as a stop codon. Bioinformaticsstudies of RB protein were performed using www.allergenonline.com, consisted of three searches, i.e. full-length search byFASTA, 80 amino acids search by FASTA, and 8 amino acid exact matches. For full-length alignment search, there are threeallergen proteins similar with RB protein sequence with the percentage identity of <35%, while for alignment with 80 aminoacids and 8 amino acids did not show similarity with any allergen protein in the database. It can be concluded that RB proteindid not have any potential as an allergen, as according to Codex Alimentarius guidelines for full-length alignment search, onlyprotein with identity greater than >50% indicating possible cross reactivity with protein allergen.
Characterization of Donor Genome Segments of BC2 and BC4 Way Rarem x Oryzica Llanos-5 Progenies Detected by SNP Markers Wening Enggarini; Surjono H. Sudjahjo; Trikoesoemaningtyas Trikoesoemaningtyas; Sriani Sujiprihati; Utut Widyastuti; Kurniawan R. Trijatmiko; Sugiono Moeljopawiro; Masdiar Bustamam; Casiana V. Cruz
Jurnal AgroBiogen Vol 8, No 1 (2012): April
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v8n1.2012.p1-7

Abstract

Plant breedersmake a succession of backcrosses to introgress a characterfrom a donor parent into genomic background of a recurrentparent. In several backcrossing, the proportion of a genometends to return almost fully to recurrent parent, except thesmall donor genome segment harboring the character ofinterest. The estimation of the proportion donor segmentthrough backcross generations has been analyzedtheoretically using complex mathematical simulations. Inthis study, the proportion of donor introgression segmentswere directly analyzed in advanced backcross populations,BC2F7 and BC4F2. The analysis was done by using a set ofsingle nucleotide polymorphism (SNP) markers covering theentire rice genome. Of the 384 SNP markers we found 124markers which provide polymorphism between recurrentparent, Way Rarem and Oryzica Llanos-5 as donor parent.But only 55 SNP markers could detect Oryzica Llanos-5alleles in BC2F7 and BC4F2 progenies. The result of thisanalysis demonstrated that the average of donor segmentnumber was 14.5 in BC2F7 and 12.3 in BC4F2. It was reduced15% from BC2F7 to BC4F2. The average of donor segmentlength was 31.2 cM (centiMorgan) in BC2F7 and 8.79 cM inBC4F2. It was decreased 72% during twice backcrossing. Theaverage of donor genome size was 343.95 cM in BC2F7 and71.35 cM in BC4F2, which means there was 79% decreasefrom BC2F7 to BC4F2. These results offered a simple methodto describe the proportion of target genome segment fromdonor parent. It was required as one of the main selectioncriteria in backcross programs.
Evaluasi Lapang dan Identifikasi Molekuler Plasma Nutfah Padi terhadap Keracunan Fe Dwinita W. Utami; Ida Hanarida
Jurnal AgroBiogen Vol 10, No 1 (2014): April
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v10n1.2014.p9-17

Abstract

Fe toxicity is one of the abiotic constraints thatcan significantly decrease rice production, especially inmarginal wetlands. The use of tolerant varieties can reducethe cost of soil processing and fertilizing. Many accessions ofrice germplasm have potential alleles that can be utilized tocreate new varieties tolerant to Fe toxicity. The objectives ofthis research were to evaluate the Fe toxicity tolerance ofrice germplasm and to analyze the genotype diversity usingSNP markers for OsIRT, Fe toxicity tolerant gene(s). Fetoxicity tolerant rice germplasms were screened in acidmarginal wetlands of Taman Bogo Experimental Station,Indonesian Soil Research Insitute, Lampung Province.Meanwhile, the genotypes performance analysis wasconducted on SNP genotyping analysis using SNP markersfor OsIRT gene(s). Based on phenotypic data of 97accessions, which were clustered into six groups, two ofthem (group 2 and group 5) consisted of the tolerantaccessions at both vegetative and generative stages. Theresults of grouping analysis of genotyping based on SNPmarkers were obtained that there were five genotypegroups: AGT, AAT, GAT, AAC, and GAC. The AGT genotypecluster was dominated by the accessions included in group1. Meanwhile, the GAT genotype cluster consisted of mixedtolerant and untolerant accessions to Fe toxicity. The GACgenotype cluster was dominated by the accessions includedin group 2. The accessions which were included in the besttolerant group, group 5, were separated in differentgenotype cluster. Based on association analysis, among thethree SNP markers, OsIRT1 was the most significant SNPmarker (P value = 0.01) which correlated to Fe toxicitytolerant on vegetative stage. Some of the selectedaccessions that were tolerant to Fe toxicity and had goodagronomic performance on acid soil with high Fe contentwere Ketan Alay, Markuti, Arias Halus, Komas a, Lantiak,and Utri Deli. These local rice accessions have the potentialalleles of OsIRT genes.
Isolasi Identifikasi Bakteri Penghasil Xilanase serta Karakterisasi Enzimnya Nur Richana; Tun T. Irawadi; Anwar Nur; Khaswar Syamsu
Jurnal AgroBiogen Vol 4, No 1 (2008): April
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v4n1.2008.p24-34

Abstract

Xylanase is an extracellular enzyme produced bymicroorganisms. This enzyme is able to hydrolise xylane(hemicellulose) to produce xylooligosaccharide and xylose.Thermoalkaliphilic xylanase is an agent that can be used asa substitute in the pulp whitening process instead of chlorine.A study was done to isolate, identificate of bacteria andcharacterize xylanase. The isolation of xylanase producingbacteria has been done from soil and waste of starch industry.Colonies which produced clearing zone were presumedas xylanolytic bacteria and chosen for further screening.Identification of potential isolate in xylanase production wasdone using 16S ribosomal RNA sequencing. Isolate Bacilluspumilus RXA-III5 originated from lime or alkaline soil wasmore potential isolate in xylanase production than other 24isolates. Precipitation of xylanase, that was done usingammonium sulphate followed by dialyzes produced xylanaseof a higher specific activity (267.1 U.mg-1) than that usingacetone (131.1 U.mg-1) and ethanol (186.65 U.mg-1). Xylanasewas done at purification produced three fractions of xylanase.Xylanase characteristics consist of pH and temperature(9 and 50oC), Km and Vmaks value 6 mg.ml-1 and 0.2mol.minute-1, respectively. The Fe2+ was the strongest activetorand Mg2+ was the strongest inhibitor activity. This enzymewas detected as a cellulose-free xylanase. Xylanase is aprospective agent for bio-bleaching of paper.
Penyimpanan In Vitro Tanaman Obat Daun Dewa melalui Pertumbuhan Minimal Endang G. Lestari; Ragapadmi Purnamaningsih
Jurnal AgroBiogen Vol 1, No 2 (2005): Oktober
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21082/jbio.v1n2.2005.p68-72

Abstract

Daun dewa (Gynura Procumbens) is a medicinal crop commonly used to remedy cancer, diabetes, and dermatitis. It has a bright prospect for future used. Plant preservations through tissue culture is done to anticipate an urgent need. An experiment was carried out to in vitro preservation of Daun Dewa by the minimum growth and regeneration to examine viability of the culture after the preservation. Terminal shoots (±1 cm) were cultured on a 1/2 MS basic medium + paclobutrazol (0, 1, 2, 3, and 4 mg/l) or ABA (1, 2, and 5 mg/l). The trial was arranged in a, completely randomized with 10 replications. The results showed a three-month preservation of the culture on a medium containing ABA inhibited proliferation and expansion of the plant shoots. Increasing ABA concentrations up to 5 mg/l, according to the shoot-growth inhibition, resulted in the height of 0.6 cm. After three month preservation, the shoots were able to produce roots. After 12 month preservation, the optimum capacity of growth inhibition was shown on 1/2 MS medium + ABA (1, 3, and 5 mg/l). The application of paclobutrazol (1, 2, 3, and 4 mg/l) in the medium produced low multiplication level of shoots, the length of the shoots remains higher than those on 1/2 MS medium without paclobutrazol. Seven months after preservation, viability of the plants was still high when cultured on MS medium + 2 mg/l BA combined with paclobutrazol and ABA as previously given. In addition, the rooted culture could be directly acclimatized in the glasshouse. The lowest number of shoot and shortest shoot after 12 month preservation period was found on the medium containing 5 mg/l ABA and 4 mg/l paclobutrazol, this treatment produced two shoots of 4 cm long. The best medium for the explant regeneration after 7 month preservation was MS + 2 mg/l BA. The plant shoots produced roots directly after they were acclimatized in the glasshouse.

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