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Physiological and Biochemical Responses to Aluminum Stress in the Root of a Biodiesel Plant Jatropha curcas L. TISTAMA, RADITE; WIDYASTUTI, UTUT; SOPANDIE, DIDY; YOKOTA, AKIHO; AKASHI, KINYA; SUHARSONO, .
HAYATI Journal of Biosciences Vol 19, No 1 (2012): March 2012
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.19.1.37

Abstract

We investigated J. curcas responses to aluminum stress, histochemically and biochemically. Histochemical stainings were observed to analysis aluminum accumulation, lipid peroxidation and the loss of plasma membrane integrity on the surface and tissue of the root apex. Enzymatic analysis was conducted to measure malate content in leaf, root and malate efflux in the medium. We used M. malabathricum as a comparison for Al-tolerance plant. J. curcas root elongation was inhibited by 0.4 mM AlCl3, while M. malabathricum root elongation was inhibited by 0.8 mM AlCl3 treatment. Inhibition of root elongation has high correlation with Al accumulation in the root apex, which caused lipid degradation and cell death. Generally, malate content in J. curcas leaf and root was higher than that in M. malabathricum. In the contrary malate efflux from the root into the medium was lower. J. curcas root has a different pattern compared to M. malabathricum in malate synthesis and malate secretion when treated with a different Al concentration. We categorized J. curcas acc IP3 as more sensitive to aluminum than M. malabathricum.
Hubunagn kemampuan pergantian inang dengan plastisitas genetika pada cendawan blas padi (Pyricularia grisea) Listiyowati, Sri; Widyastuti, Utut; Rahayu, Gayuh; Hartana, Alex; Jusuf, Muhammad
Jurnal Ilmu Pertanian Indonesia Vol 14, No 2 (2009): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

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Abstract

The Digitaria ciliaris, wild grass grown around rice field, was a host for Pyricularia grisea (Cooke) Sacc., the fungi caused blast disease of rice. This fungi have a specific mechanism to regenerate new genetic variation in its life cycle. The aim of this research is to study the relation between the ability of the fungi to infect different species of host with its genetic plasticity. It was used three SCAR molecular markers Cutl, Pwl 1 and Erg2. P.grisea isolates (Dc4J1) originated from D. ciliaris at Jasinga-Bogor were able to infect rice cultivars Kencana Baliand Cisokan. The original Dc4Jl, from D. ciliaris, and the Dc4Jl that were reisolated from the infected rice cultivars (reisolates-1) had the same ability to infect Kencana Bali and Cisokan. Molecular technique showed that there was a different molecular marker genotype between the original Dc4J1, from D. ciliaris, and the Dc4Jl reisolated from infected rice cultivars. The original Dc4J1 owned Cutl but did not Pwl2 in contrary the reisolatesDc4J1 from rice cultivars (reisolates-1) had Pwl2 but did not Cutl. The Erg2 presented in both the original and the reisolated Dc4Jl. These results indicated that there were a change of genotype of P. grisea at the same time with the change of host species. The Dc4Jl isolates originated from Kencana Bali and Cisokan (reisolates-2) that were infected by reisolate-1, had the same genotype with the reisolates-1. Keywords: Digitaria ciliaris, Pyricularia grisea, genetic plasticity.
PERTUMBUHAN TANAMAN JARAK PAGAR (Jatropha curcas L.) PADA LAHAN PASCA TAMBANG TIMAH DI BANGKA YANG DIBERI PUPUK ORGANIK Gedoan, Sukmarayu P; Hartana, Alex; Hamim, Hamim; Widyastuti, Utut; Sukarno, Nampiah
JURNAL ILMIAH SAINS Vol 11, No 2 (2011): Volume 11 Nomor 2, Oktober 2011
Publisher : Sam Ratulangi University

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Abstract

PERTUMBUHAN TANAMAN JARAK  PAGAR (Jatropha curcas L.) PADA LAHAN PASCA TAMBANG TIMAH DI BANGKA YANG DIBERI PUPUK ORGANIK Sukmarayu P. Gedoan1), Alex Hartana2), Hamim2), Utut Widyastuti2) dan Nampiah Sukarno2) 1)Program Studi Biologi, FMIPA Universitas Negeri Manado di Tondano; 2)Departemen Biologi, FMIPA, Institut Pertanian Bogor, Bogor 16680   ABSTRAK Kegiatan penambangan timah menyebabkan perubahan karakteristik fisika dan kimia tanah sehingga menjadi tidak sesuai untuk pertumbuhan tanaman.  Tujuan penelitian ini untuk mempelajari pertumbuhan 7 aksesi jarak pagar yang ditanam pada lahan pasca tambang timah yang diberi kompos dan kotoran sapi.  Penelitian ini dilakukan di TSS 133, Kelurahan Sinar Baru, Kabupaten Bangka, Provinsi Bangka Belitung.  Penelitian lapangan dilaksanakan pada Bulan Mei 2007 sampai dengan Bulan Desember  2008.  Percobaan faktorial ini dirancang dalam Rancangan Petak Terbagi dengan tiga ulangan.  Petak utama adalah 7 aksesi jarak pagar yang terdiri atas: aksesi Madiun, Ponorogo, Jember, Dompu, Lampung, Bengkulu,  dan Sukabumi, sedangkan  anak petak berupa tanah tanpa pemberian kompos dan pupuk kandang (kontrol), kompos trubus 4 kg/lubang ditambah 4 kg tanah bagian atas  dan  kotoran sapi 4 kg/lubang ditambah 4 kg tanah bagian atas. Hasil penelitian menunjukkan bahwa pertumbuhan awal yang paling baik untuk tanah bekas tambang timah adalah pada aksesi Jember yang ditunjukkan oleh diameter batang, berat kering tanaman, berat kering tajuk dan berat kering akar.  Sedangkan tinggi tanaman tertinggi diamati pada aksesi Madiun.  Penambahan kotoran sapi dapat meningkatkan produksi biji dan kandungan minyak.  Produksi biji tertinggi diperoleh pada aksesi Bengkulu dan kandungan minyak tertinggi diperoleh pada aksesi Dompu. Kata kunci: aksesi, Jatropha curcas, kompos, kotoran sapi   THE GROWTH OF CASTOR OIL PLANT (Jatropha curcas L.) ON THE POST-TIN-MINING LAND IN BANGKA PROVIDED WITH ORGANIC FERTILIZER ABSTRACT The activity of tin mining changes the physical and chemical characteritics of soil, so that the soil isnot suitable for plant growth.  The objective of this research was to evaluate the growth of some accession of Jatropha curcas that we planted on post-tin-mining land provided with compost and cow feces.   This research was conducted in TS 133, Sinar Baru Village, District of Bangka, Province of Bangka Belitung.  This field research was carried out in May 2007 to December 2008.  Factorial experiment was designed as split plot with three replications.  The main plot was 7 accessions, i.e. Madiun, Ponorogo, Jember, Dompu, Lampung, Bengkulu, and  Sukabumi.  The subplot waskonds of organic fertilizer, i.e. top soil without addition of compost and cow fecer (control), trubus compost  (4 kg/hole) added with top soil (4 kg/hole), and cow feces (4 kg/hole) added with topbsoil (4 kg/hole). The result showed that Jember accession had the best early growth based on the observation of stem diameter, plant dry weight, and root dry weight.  The largest plant height was observed in Madiun accession.  The higest seed production was observed in Bengkulu accession and Dompu accession had the higest oil content.Keywords: accession, Jatropha curcas, , compost, cow feces
Diversity of SCAR Markers of Pyricularia grisea Isolated from Digitaria ciliaris Following Cross Infection to Rice LISTIYOWATI, SRI; WIDYASTUTI, UTUT; RAHAYU, GAYUH; HARTANA, ALEX; JUSUF, MUHAMMAD
Microbiology Indonesia Vol 5, No 1 (2011): March 2011
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.5.1.1

Abstract

Cross infection of Pyricularia grisea from grass to rice and vice versa has been reported, but genetic changes are not known yet.  This research  aimed at estimating the possibility of the genotype alteration in P. grisea dc4 isolated from Digitaria ciliaris, following cross infection to either rice cv. Kencana bali, Cisokan, and IR64 or Panicum repens, Cynodon dactylon, Digitaria sp., and Ottochloa nodosa. The genotypes were analyzed by employing three SCAR markers, Cut1; PWL2; and Erg2.  The results indicated that the dc4 was only able to infect Kencana bali, Cisokan, and P. repens.  The dc4 had only two out of three SCAR markers, Cut1 and Erg2.  Host shift was followed by genotype alteration in two loci of SCAR.  Isolates derived from lesions on Kencana bali (dc4-kb) and Cisokan (dc4-c) of the dc4 infection, both lost their Cut1 and gained PWL2. On the contrary, there was no genotype alteration from dc4 to isolate derived from P. repens of dc4 infection (dc4-pr).  Neither the isolate dc4-kb  that was cross-inoculated to Cisokan nor the dc4-c that was cross-inoculated to Kencana bali showed SCAR marker change.  In comparison,  race 173 isolate and those derived from Kencana bali and Cisokan did not show genotype alteration. All had two out of three SCAR markers, PWL2 and Erg2.  The isolate 173 was adapted to rice. This indicated that genotype diversity of the dc4 might arise following host shift from grass to rice.Pyricularia grisea merupakan cendawan blas yang telah diketahui memiliki kisaran inang luas selain pada padi. Infeksi silang cendawan blas pada rumput ke padi dan sebaliknya telah dilaporkan, tetapi perubahan genetiknya belum dilaporkan. Tujuan penelitian ini menganalisis kemampuan infeksi silang dan perubahan genotipe P. grisea dc4 asal Digitaria ciliaris dalam perpindahannya ke padi cv. Kencana bali, Cisokan, dan IR64 atau rumput Panicum repens, Cynodon dactylon, Digitaria sp. dan Ottochloa nodosa. Genotipe P. grisea dianalisis melalui tiga marka SCAR, yaitu Cut1; PWL2; dan Erg2. Isolat dc4 memiliki 2 marka SCAR, yaitu Cut1 dan Erg2; tidak memiliki PWL2. Isolat dc4 hanya mampu menginfeksi silang Kencana bali, Cisokan, dan P. repens. Turunan isolat dc4 sebagai hasil infeksi silang ke Kencana bali (dc4-kb) dan Cisokan (dc4-c) menunjukkan perubahan genotipenya, yaitu Cut1 tidak teramplifikasi pada keduanya; PWL2 teramplifikasi;, serta Erg2 tetap teramplifikasi. Sebaliknya, turunan isolat dc4 sebagai hasil infeksi silang ke P. repens (dc4-pr) tidak mengalami perubahan genotipe. Turunan isolat dc4-kb sebagai hasil infeksi silang ke Cisokan, maupun turunan isolat dc4-c dari Kencana bali, juga tidak menunjukkan perubahan genotipe, yaitu tetap menunjukkan keberadaan PWL2 dan Erg2. Sebagai pembanding digunakan isolat ras 173 yang diisolasi dari padi.  Genotipe isolat tersebut maupun turunannya, sebagai hasil infeksi silang ke Kencana bali dan Cisokan, tidak menunjukkan perubahan. Perubahan genotipe dc4 terjadi mengikuti pergantian inang dari rumput ke padi.
IMPROVEMENT METHOD OF GENE TRANSFER IN Kappaphycus alvarezii Triana, St. Hidayah; Alimuddin, .; Widyastuti, Utut; Suharsono, .; Suryati, Emma; Parenrengi, Andi
Jurnal Ilmu dan Teknologi Kelautan Tropis Vol 8, No 1 (2016): Elektronik Jurnal Ilmu dan Teknologi Kelautan Tropis
Publisher : IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jitkt.v8i1.13087

Abstract

Method of foreign gene transfer in red seaweed Kappaphycus alvarezii has been reported, however, li-mited number of transgenic F0 (broodstock) was obtained. This study was conducted to improve the method of gene transfer mediated by Agrobacterium tumefaciens in order to obtain high percentage of K. alvarezii transgenic. Superoxide dismutase gene from Melastoma malabatrichum (MmCu/Zn-SOD) was used as model towards increasing adaptability of K. alvarezii to environmental stress. The treat-ments were the culture media and recovery duration, and each treatment consisted of three replica-tions. The best method was co-cultivation using liquid media, then recovery was conducted in liquid media for 10 days. That treatment allowed higher transformation percentage (90%), regeneration effi-ciency (90%), putative bud efficiency (100%), number of buds and explants sprouted (100%) and transgenic explants (100%). The transgenic explants showed an amplification PCR product of Mm-Cu/Zn-SOD gene fragment, whereas the non-transgenic explants showed no amplification product.  All results revealed that suitable method of transgenesis for K. alvarezii has been developed. Keywords:       Agrobacterium tumefaciens, culture media, Kappaphycus alvarezii, recovery duration, transformation
Diversity of Endophytic Fungi from Red Ginger (Zingiber officinale Rosc.) Plant and Their Inhibitory Effect to Fusarium oxysporum Plant Pathogenic Fungi GINTING, ROHANI CINTA BADIA; SUKARNO, NAMPIAH; WIDYASTUTI, UTUT; DARUSMAN, LATIFAH KOSIM; KANAYA, SIHEGIKO
HAYATI Journal of Biosciences Vol 20, No 3 (2013): September 2013
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.20.3.127

Abstract

Indonesia has been known as a country with high medicinal plant diversity. One of the most common medicinal plant from Indonesia is red ginger (Zingiber officinale Rosc.). Nevertheless, limited studies of endophytic fungi associated with these medicinal plants are hitherto available. The objectives of this research were to study the diversity of endophytic fungi on red ginger and to analyze their potential as a source of antifungal agent. All parts of plant organs such as leaf, rhizome, root, and stem were subjected for isolation. Fungal identification was carried out by using a combination of morphological characteristic and molecular analysis of DNA sequence generated from ITS rDNA region. Thirty endophytic fungi were successfully isolated from leaf, rhizome, root, and stem of red ginger plant. Antagonistic activity was tested against Fusarium oxysporum, a pathogenic fungus on plants, using an antagonistic assay. Based on this approach, the fungi were assigned as Acremonium macroclavatum, Beltraniella sp., Cochliobolus geniculatus and its anamorphic stage Curvularia affinis, Fusarium solani, Glomerella cingulata, and its anamorphic stage Colletotrichum gloeosporoides, Lecanicillium kalimantanense, Myrothecium verrucaria, Neonectria punicea, Periconia macrospinosa, Rhizopycnis vagum, and Talaromyces assiutensis. R. vagum was found specifically on root whereas C. affinis, L. kalimantanense, and M. verrucaria were found on stem of red ginger plant.  A. macroclavatum was found specifically in red ginger plant’s organ which located under the ground, whereas C. affinis was found from shoot or organ which located above the ground. The antagonistic activity of isolated endophytic fungi against F. oxysporum varied with the inhibition value range from 1.4 to 68.8%. C. affinis (JMbt7), F. solani (JMd14), and G. cingulata (JMr2) had significantly high antagonistic activity with the value above 65%; and R. vagum (JMa4) and C. geniculatus (JMbt9) had significantly low antagonistic activity with the range value 0-10%.
Binary Vector Construction and Agrobacterium tumefaciens-mediated Transformation of Lysozyme Gene in Seaweed Kappaphycus alvarezii handayani, Tri; Alimuddin, Alimuddin; Widyastuti, Utut; Suryati, Emma; Parenrengi, Andi
BIOTROPIA - The Southeast Asian Journal of Tropical Biology Vol 21, No 2 (2014)
Publisher : SEAMEO BIOTROP

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11598/btb.2014.21.2.348

Abstract

Ice-ice disease is the biggest problem in the cultivation of seaweed Kappaphycus alvarezii. The disease is caused by bacterial infection and induced by drastic changes of water quality. Lysozyme has the ability to break down bacterial cell wall. The purpose of this research was to construct of a binary vector pMSH1-Lys carrying chicken Lysozyme (Lis) gene and introduce pMSH1-Lis on K. alvarezii. The binary vector expression was transformed into Agrobacterium tumefaciens LBA4404 by triparental mating. Thallus was inoculated with A. tumefaciens carrying pMSH1-Lis and then the transformed thallus was selected by adding 20 mg/L hygromycin to the culture medium. PCR analysis showed that the construction of the binary plasmid pMSH1-Lys was established. Percentage of transformation of pMSH1-Lis on K. alvarezii was 23.56%, while the efficiency of regeneration was 11.32%. PCR analysis showed that three of the regenerated thallus contained Lysozyme gene. Thus, transgenic K. alvarezii was produced successfully and this can be useful for studying the mechanisms of seaweed defense against bacterial infection.
Characterization of chaperone-like activity of small heat shock protein (sHSP) isolated from Indonesian Traditional Food (Tempoyak ) Lactobacillus plantarum U10 HASLIA, MARGARETA; MUSTOPA, APON ZAENAL; BUDIARTO, BUGI RATNO; WIDYASTUTI, UTUT
Microbiology Indonesia Vol 8, No 4 (2014): December 2014
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.8.4.7

Abstract

The characterization of small heat shock protein (sHSP) from tempoyak-originated Lactobacillus plantarum was investigated. The heat adaptive response proteins were ranging from 18 kDa to 51 kDa. Interestingly, the Intercellular Protein (IP) fraction of heat shocked-L.plantarum U10 exhibited chaperone like activity by the ability to prevent loss of proteinase K activity from denaturation. Furthermore, The sHSP gene that related to the predicted sHSP ±18 kDa protein were successfully identified by PCR method and this gene has 423 bp size. The sHSP gene has 140 amino acids (with unique motive at C-terminus T-L-P-K amino acid sequence) and has closely 100% identity with those L.plantarum isolated from food or non-food environment. Moreover, the gene encoding sHSP ±18 kDa protein was indeed up-regulated after L.plantarum U10 treated by heat shocking as proven by Reverse Transcriptase-PCR. This result suggested that sHSP ±18 kDa in our study may confers a survival advantage on Lactobacillus plantarum and capable of protecting the cell against under temperature stress.
Detection of Luminous Vibrio harveyi in Penaeid Shrimp Through Nested PCR Using Haemolysin Gene Primer SETIAWAN, WAWAN ABDULLAH; WIDYASTUTI, UTUT; YUHANA, MUNTI
HAYATI Journal of Biosciences Vol 22, No 2 (2015): April 2015
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.22.2.60

Abstract

Whiteleg shrimp (Litopenaeus vannamei)  is one of the most important aquaculture commodity in Indonesia. However, the luminous disease primarily caused by Vibrio harveyi bacteria still becomes an obstacle in penaeid shrimp farming, especially in shrimp hatchery. This study was aimed to identify the presence of V. harveyi in L. vannamei through nested PCR using haemolysin gene primer. First, initial primers were designed using V. harveyi VIB 391 haemolysin gene sequence (accession number: DQ640264), flanking the position 133 to 756. This primer pairs were used to identify haemolysin gene in both V. harveyi MR5339 and V. harveyi 275 strain. Sequencing results from each sample showed 99% similarity with haemolysin gene sequence in Genebank. Furthermore, the sequence of V. harveyi MR5339 haemolysin gene was used to design the nested PCR primers. The first primer pairs of nested PCR have successfully amplified the haemolysin gene fragment of all V. harveyi strains samples from position 52 to 405. The second primer pairs of nested PCR have amplified position 204 to 405 where it can detect all of V. harveyi strains used as sample sources in this study. The application of nested PCR technique in this study was able to identify V. harveyi strains at serial dilution of cells density as low as 100 cfu/mL, which is equal to a single cell or at DNA concentration up to 101 fg/µL.
Diversity of Endophytic Fungi from Red Ginger (Zingiber officinale Rosc.) Plant and Their Inhibitory Effect to Fusarium oxysporum Plant Pathogenic Fungi GINTING, ROHANI CINTA BADIA; SUKARNO, NAMPIAH; WIDYASTUTI, UTUT; DARUSMAN, LATIFAH KOSIM; KANAYA, SIHEGIKO
HAYATI Journal of Biosciences Vol 20, No 3 (2013): September 2013
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.20.3.127

Abstract

Indonesia has been known as a country with high medicinal plant diversity. One of the most common medicinal plant from Indonesia is red ginger (Zingiber officinale Rosc.). Nevertheless, limited studies of endophytic fungi associated with these medicinal plants are hitherto available. The objectives of this research were to study the diversity of endophytic fungi on red ginger and to analyze their potential as a source of antifungal agent. All parts of plant organs such as leaf, rhizome, root, and stem were subjected for isolation. Fungal identification was carried out by using a combination of morphological characteristic and molecular analysis of DNA sequence generated from ITS rDNA region. Thirty endophytic fungi were successfully isolated from leaf, rhizome, root, and stem of red ginger plant. Antagonistic activity was tested against Fusarium oxysporum, a pathogenic fungus on plants, using an antagonistic assay. Based on this approach, the fungi were assigned as Acremonium macroclavatum, Beltraniella sp., Cochliobolus geniculatus and its anamorphic stage Curvularia affinis, Fusarium solani, Glomerella cingulata, and its anamorphic stage Colletotrichum gloeosporoides, Lecanicillium kalimantanense, Myrothecium verrucaria, Neonectria punicea, Periconia macrospinosa, Rhizopycnis vagum, and Talaromyces assiutensis. R. vagum was found specifically on root whereas C. affinis, L. kalimantanense, and M. verrucaria were found on stem of red ginger plant.  A. macroclavatum was found specifically in red ginger plant?s organ which located under the ground, whereas C. affinis was found from shoot or organ which located above the ground. The antagonistic activity of isolated endophytic fungi against F. oxysporum varied with the inhibition value range from 1.4 to 68.8%. C. affinis (JMbt7), F. solani (JMd14), and G. cingulata (JMr2) had significantly high antagonistic activity with the value above 65%; and R. vagum (JMa4) and C. geniculatus (JMbt9) had significantly low antagonistic activity with the range value 0-10%.