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HAYATI Journal of Biosciences

hayati
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Published by Institut Pertanian Bogor

ISSN : 19783019 EISSN : 20864094 DOI : -

Core Subject : Science, Agriculture,

Agriculture, Biological Sciences & Forestry Earth & Planetary Sciences

HAYATI Journal of Biosciences (HAYATI J Biosci) publishes articles and short communication in tropical bioscience fields such as development, biotechnology, biodiversity and environmental issues. HAYATI J Biosci covers wide range of all life forms topics including virus, microbes, fungi, plants, animal and human. HAYATI J Biosci has been also indexed/registered in Crossref, DOAJ, CABI, EBSCO, Agricola and ProQuest.

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Articles 1,077 Documents

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Population Dynamics of Yeasts and Lactic Acid Bacteria (LAB) During Tempeh Production . EFRIWATI; ANTONIUS SUWANTO; GAYUH RAHAYU; LILIS NURAIDA
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Yeasts and lactic acid bacteria (LAB) are commonly found in tempeh and has been studied separately. However, comprehensive study on population dynamics of yeasts and LAB during tempeh production, including the effect of the difference tempeh production methods has not been reported. This research was aimed in studying the effect of different methods of tempeh production applied in tempeh home industry on the dynamics of yeast and LAB communities. Population dynamics was expressed as both changes of colony number and its phylotype. Samples were obtained from five stages and from two different methods of tempeh production. Observations were carried out employing colony counting on selective media followed by Terminal Restriction Fragment Length Polymorphism (T-RFLP). The study indicated that the population of yeasts and LAB during tempeh production were dynamic and different between these methods. Tempeh production methods affected the presence of yeasts and LAB population as indicated by difference in colony number, the number and diversity of phylotype, as well as number of specific phylotypes grew on plates.

Bacterial and Fungal Communities in Tempeh as Reveal by Amplified Ribosomal Intergenic Sequence Analysis SEUMAHU, CECILIA ANNA; SUWANTO, ANTONIUS; RUSMANA, IMAN; SOLIHIN, DEDY DURYADI
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Tempeh is an Indonesian traditional fermented food produced using Rhizopus as a starter culture. In practice, however, the starter culture as well as fermentation processes would yield a polymicrobial fermentation, which generated a unique tempeh flavor and texture. This condition makes Indonesian tempeh as one of the most complex fermented food, while at the same time would make it difficult to scale up tempeh production with uniform quality and consistency. The aim of this study was to compare a number of tempeh microbial communities employing Amplified Ribosomal Intergenic Sequence Analysis (ARISA). Fresh tempeh samples were obtained from tempeh producers in Java and Moluccas. 16S rRNA gene libraries and DNA sequencing were employed to analyze further the nature of bacterial diversity in two selected tempeh samples. The results of our study showed that different tempeh producer possessed different Bacterial ARISA (BARISA) or fungi ARISA (FARISA) profiles. However, BARISA profiles were found to be more discriminative than FARISA, and therefore BARISA would be more useful for tempeh genetic fingerprint or barcoding.

Contribution of Alpha and Beta Diversity Across Land-Use Type to the Regional Diversity of Dung Beetles in Central Sulawesi . SHAHABUDDIN
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

The importance of spatial scale has been acknowledged as one of determining factors of species diversity in local and regional diversity. The aim of this study was to evaluate contribution of alpha (a) and beta (b) diversity across land-use type to gamma (g) diversity at the margins of tropical forest in Central Sulawesi using dung beetles (Coleoptera: Scarabaeidae) as a focal group. Baited pitfall traps set in four land-use types ranging from natural forest through cacao agroforestry systems to open areas during two years of sampling (2009 and 2012). A total of 28 dung beetle species belonging to four genera were captured during the study period. The results showed that contribution of b diversity was higher than that of a diversity of dung beetles. Each land-use type contributed about 56.5 to 62.5% of the total species richness (g diversity). The similar pattern of biodiversity between each spatial scale and during the two sampling years emphasized the large contribution of each land-use type to maintaining a high portion of the regional species richness. It suggests the importance of managing other land-use types, such as secondary forest and agroforestry as well as protecting the remaining natural forests.

Three Species of Ectoparasite Mites (Acari: Pterygosomatidae) Infested Geckos in Indonesia TARUNI SRI PRAWASTI; ACHMAD FARAJALLAH; RIKA RAFFIUDIN
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Limited data is hitherto available on the diversity and dispersal of parasitic mites of geckos in Indonesia. Here, we collected three species of geckos, namely Cosymbotus platyurus, Hemidactylus frenatus, and H. garnotii throughout Indonesia to study the distribution and diversity of its parasitic mites. We conducted detail morphological analysis of the mites using whole mount polyvinyl lactophenol and scanning electron microscope preparation. Three species of ectoparasite mites from genus Geckobia were identified in a total of 221 individuals out of 448 geckos collected from 25 sites in Indonesia. Two species were G. glebosum and G. bataviensis, and the other one was designated as Geckobia sp 1. Based on our result, the three mites species were spread randomly and live sympatrically. The G. bataviensis mite showed the widest distribution, because it was found in almost all gecko collection sites, hence the most cosmopolitan mites. We also found that C. platyurus gecko had the lowest mite prevalence which might due to the fact that it has the least number of skin folds, an important site for mite protection. This result implies that further research on the relationship of anatomy of gecko skin with chelicera and claw structure of mites is necessary in the future.

Physiological and Molecular Characteristics of Bacterial Isolates from Bandealit Coastal Area Jember, East Java, Indonesia DINA FITRIYAH; SATTYA ARIMURTI; KARTIKA SENJARINI
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Bacteria are the most dominant group of microorganisms in aquatic environments due to their role in organic matter decomposition. Decomposition activity is related to the type and dominance of bacteria in the communities. Therefore, study of bacterial diversity is an important step to understand their role in aquatic ecosystems. This study was to determine bacterial diversity and their physiological characters of bacteria from Bandealit Coast in Jember East Java Indonesia. The bacteria were confirmed by BOX-PCR profile for their genetic polymorphisms. Identification of potential isolate was conducted based on 16S rRNA gene sequence. The result showed that BA011109 isolate was able to utilize D-cellobiose as a sole substrate, indicating its ability to hydrolyse b-glucoside bond. This isolate was a potential decomposer in the area considering that most of organic pollutants were from plants that cointain high cellulose. Based on its 16S rRNA gene sequence, this isolate was closely related to Microbacterium esteraromaticum with 100% homology. Further study on quantitative hydrolytic activities is needed to elucidate its role as an organic matter decomposer in aquatic environment.

Diversity of Amylase-Producing Bacillus spp. from “Tape” (Fermented Cassava) BARUS, TATI; KRISTANI, AMANDA; YULANDI, ADI
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Fermented cassava or “Tape” is one of traditional Indonesian fermented food. The quality of “Tape” is determined by microorganisms involved during fermentation process. It was reported that Bacillus subtilis determined the quality of cassava “Tape”. The most common way to identify species is by using 16S rRNA gene. This gene contains conserved regions as unique sequence which is relative among species. It has been widely used as a reliable molecular marker for phylogeny identification. Therefore, the aim of this research was to study diversity of amylase-producing Bacillus spp. from “Tape” based on 16S rRNA gene sequences. Bacillus spp. were isolated from “Tape” from several area in Indonesia i.e. Jakarta, Bandung, Cianjur, Subang, Rangkas Bitung, and Kediri. Amplification of 16S rRNA gene used 63f and 1387r primers. This research showed that based on 16S rRNA gene sequences, twenty-six of amylase-producing Bacillus spp. isolates were divided into four groups. All isolates were identified as species either B. megaterium, B. subtilis, B. amyloliquefaciens, or B. thuringiensis.

The Expression of Genes Encoding Secreted Proteins in Medicago truncatula A17 Inoculated Roots LUCIA KUSUMAWATI; KATHRYN KURAN; NIJAT IMIN; ULRIKE MATHESIUS; MICHAEL DJORDJEVIC
HAYATI Journal of Biosciences Vol. 20 No. 3 (2013): September 2013
Publisher : Bogor Agricultural University, Indonesia

Subtilisin-like serine protease (MtSBT), serine carboxypeptidase (MtSCP), MtN5, non-specific lipid transfer protein (MtnsLTP), early nodulin2-like protein (MtENOD2-like), FAD-binding domain containing protein (MtFAD-BP1), and rhicadhesin receptor protein (MtRHRE1) were among 34 proteins found in the supernatant of M. truncatula 2HA and sickle cell suspension cultures. This study investigated the expression of genes encoding those proteins in roots and developing nodules. Two methods were used: quantitative real time RT-PCR and gene expression analysis (with promoter:GUS fusion) in roots. Those proteins are predicted as secreted proteins which is indirectly supported by the findings that promoter:GUS fusions of six of the seven genes encoding secreted proteins were strongly expressed in the vascular bundle of transgenic hairy roots. All six genes have expressed in 14-day old nodule. The expression levels of the selected seven genes were quantified in Sinorhizobium-inoculated and control plants using quantitative real time RT-PCR. In conclusion, among seven genes encoding secreted proteins analyzed, the expression level of only one gene, MtN5, was up-regulated significantly in inoculated root segments compared to controls. The expression of MtSBT1, MtSCP1, MtnsLTP, MtFAD-BP1, MtRHRE1 and MtN5 were higher in root tip than in other tissues examined.

Volatile Compounds of Pluchea indica Less and Ocimum basillicum Linn Essential Oiland Potency as Antioxidant PAINI SRI WIDYAWATI; CHRISTOFORA HANNY WIJAYA; PENI SUPRAPTI HARDJOSWORO; DONDIN SAJUTHI
HAYATI Journal of Biosciences Vol. 20 No. 3 (2013): September 2013
Publisher : Bogor Agricultural University, Indonesia

This research was conducted to identify volatile compounds of pluchea and basil essential oils and their antioxidant capacity to scavenge a DPPH (1,1-diphenyl-2-picrylhidrazyl) free radical and inhibit lipid peroxidation. Essential oil of pluchea and basil leaves was prepared by hydrodistillation method and then their volatile compounds were identified by GC-MS. The volatile compounds in the essential oil of pluchea leaves consist of 66 components with (10S,11S)-Himachala-3-(12)-4-diene (17.13%) made up the highest proportion of volatile compounds. Basil leaves had 70 volatile components in which the major components were (E)-3,7-dimethyl-2,6-octadienal (23.98%) and (Z)- 3,7-dimethyl-2,6-octadienal (17.35%). Total phenol levels in pluchea and basil essential oils were 275 and 209 ppm, respectively. DPPH scavenging activity of the essential oil of pluchea leaves was lower than that of basil leaves, conversely inhibition activity of lipid peroxidation in palm oil of pluchea essential oil was higher than that of basil leaves.

Diversity of Endophytic Fungi from Red Ginger (Zingiber officinale Rosc.) Plant and Their Inhibitory Effect to Fusarium oxysporum Plant Pathogenic Fungi ROHANI CINTA BADIA GINTING; NAMPIAH SUKARNO; UTUT WIDYASTUTI; LATIFAH KOSIM DARUSMAN; SIHEGIKO KANAYA
HAYATI Journal of Biosciences Vol. 20 No. 3 (2013): September 2013
Publisher : Bogor Agricultural University, Indonesia

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%.

Morphometric Variations of Rasbora Group (Pisces: Cyprinidae) in Lake Laut Tawar, Aceh Province, Indonesia, Based on Truss Character Analysis ZAINAL ABIDIN MUCHLISIN
HAYATI Journal of Biosciences Vol. 20 No. 3 (2013): September 2013
Publisher : Bogor Agricultural University, Indonesia

The genetic variation of Rasbora group in Lake Laut Tawar has been reported previously, however information on morphometric variations of this Genus was not available. Hence, the objective of the present study was to evaluate the morphometric characters of Rasbora group in Lake Laut Tawar, in order to contribute useful information on the biology of this important fish. The truss morphometric method was utilized in this study. A total of 45 samples of Depik, 42 samples of Eas and 44 samples of Relo were used in this evaluation. Eight homologous landmarks were determined along the outline of the fish, and based on these landmarks, 14 characters or linear measurements were recognized. Discriminant function analysis was employed to distinguish the fish sample. The results showed that the truss morphological characters could highlight the high differentiation between Relo and the other two groups, and the closeness of Eas and Depik. The morphometric data strongly indicated that Eas and Depik should be regarded as a same species, Rasbora tawarensis, and Relo may be considered as a cryptic species. This finding is in agreement to the genetic data which was published previously.

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