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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 11 Documents

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Search results for , issue "Vol. 23 No. 3 (2016): July 2016" : 11 Documents clear

Proteogenomics: New Emerging Technology Wasim Sajjad; Muhammad Rafiq; Barkat Ali; Muhammad Hayat; Sahib Zada; Wasim Sajjad; Tanweer Kumar
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.23.3.97

The term proteogenomics is basically the integration of proteomics with genomics and transcriptomics. Today, proteogenomics is developing on the way to combined understanding about overall cellular functions. At present globally, structure of genes, expression of genes (in the form of mRNA synthesis), synthesis of proteins (translation of mRNA) and post-translational modification (structural modification of proteins) have turn out to be technically practicable and act as a novel viewpoint to molecular procedures. Current research has proved the importance of proteogenomics technology in cancer for studying molecular signature of tumors particularly in human beings, and its treatment and prevention. Proteogenomics is not restricted to oncology but it also plays a vital role in other areas of life sciences and biomedicines and anticipation can make up these areas. Here in this minireview, we will discuss the latest progress made in recent years, challenges and viewpoints about proteogenomics technology.

Two Newly Recorded Species of the Lobster Family Scyllaridae (Thenus indicus and Scyllarides haanii) From South of Java, Indonesia Yusli Wardiatno; Agus Alim Hakim; Ali Mashar; Nurlisa Alias Butet; Luky Adrianto
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Two species of slipper lobster, Thenus indicus Leach, 1815, and Scyllarides haanii De Haan, 1841, are reported for the first time from the coastal waters of South of Java, part of the Indian Ocean. A total of two specimens, one specimen of T. indicus from Palabuhanratu Bay and one specimen of S. haanii from Yogyakarta coastal waters, were collected in April and September 2015, respectively. Descriptions and illustrations of the morphological characteristics of the two species and their habitat are presented.

Semi Intensive and Semi Biofloc Methods for the Culture of Indian White Prawn, Fenneropenaeus indicus in High-density Polyethylene Liner Ponds Indra Effendy; Samy Al Deen; Sambhu Chithambaran
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

An experiment (triplicated) was conducted to assess the growth and production of Indian white prawn, Fenneropenaeus indicus in semi intensive and semi biofloc culture technique for a period of 120 days in polythene liner ponds (300 m2). Water exchange was done at 10% in semi intensive culture method (control) and zero water exchange was done in semi biofloc method (treatment). Soya hull and molasses were added as carbon sources to induce biofloc formation in treatment ponds. Post larvae (PL20) were stocked at the rate of 100/m2 in each pond and fed with a standard shrimp feed. Shrimp growth, physico-chemical parameters of water, bacteria, phytoplankton and zooplankton population, immune response and physical quality of shrimp were recorded during the period. Significant difference (p < 0.01) in shrimp growth (weight) was observed between control and treatment. Phytoplankton population and total haemocyte count were found to be increased and pathogenic bacteria population decreased in treatment ponds. Strong linear relationship was found between growth and biofloc content in treatment ponds. Shrimp grown in biofloc pond showed better colour and taste compared to control. Semi biofloc technique can be considered as an ideal culture method for bio secure production of white shrimp in semi arid lands.

Expression of Recombinant Sugarcane Streak Mosaic Virus Coat Protein Gene in Escherichia coli Hamdayanty Hamdayanty; Sri Hendrastuti Hidayat; Tri Asmira Damayanti
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Sugarcane streak mosaic virus (SCSMV) is an important virus causing mosaic disease in sugarcane and transmitted through the cutting cane. Commercial antiserum to detect SCSMV and to monitor the disease development is not available. The research was conducted to produce antigen of SCSMV coat protein (SCSMV-CP) through overexpressing it on bacterial expression which will be used for antiserum production. SCSMV-CP was amplified using specific primers for CP gene containing BamHI and HindIII restriction enzyme sites and cloned into pTZ57R/T. Subsequently, the SCSMV-CP was subcloned into pET28a and transformed on Escherichia coli BL21(DE3) and Rosetta-gami(DE3)pLysS. The concentration of isopropyl β-d-thiogalactopyranoside (IPTG), incubation temperature, and bacterial harvesting time after IPTG induction were optimized. SCSMV-CP gene was successfully amplified with size ±855 bp, subcloned into vector expression, and expressed in insoluble fraction either in both bacterial host. Optimal protein expression of SCSMV-CP recombinant was obtained at 25°C with IPTG concentration 0.25–1.00 mM and harvested at 9–12 hours after IPTG induction in E. coliBL21(DE3), and at 30°C with IPTG concentration 0.25–1.00 mM and harvested 3–12 hours after IPTG induction in E. coli Rosetta(DE3)pLysS. SDS-PAGE analysis showed that protein size of SCSMV-CP recombinant was ±35.4 kDa.

Elimination of Chloramphenicol by Tiger Shrimp (Penaeus monodon) and White Shrimp (Litopenaeus vannamei) Heny Suseno; Sumi Hudiyono; Muslim Muslim
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Chloramphenicol (CAP) has been illegally used in many shrimp farms in South East Asia, including Indonesia. We performed an experiment of elimination simulation of CAP in tiger shrimp (Penaeus monodon) and white shrimp (Litopenaeus vannamei). After 5 days of depuration process, the concentration of CAP in P. monodon decreased to 94.85% (muscle), 97.98% (cephalothoraxes), and 90.30% (exoskeleton). The elimination half-life of CAP in P monodon was 0.596 day in the muscle, 0.716 day in cephalothorax, and 0.437 day in exoskeleton. On the other hand, concentrations of CAP in L. vannameidecreased to 97.74% (muscle), 90.30% (cephalothoraxes), and 97.63% (exoskeleton). The elimination half-life of CAP in L. vannamei was 0.6624 day (muscle), 0.859 day (cephalothorax), and 0.796 day (exoskeleton). CAP was retained better by P. monodoncompared to L. vannamei.

Cognitive Style and Creative Quality: Influence on Academic Achievement of University Students in Indonesia Nurul Huda Wulandari; Kanthi Arum Widayati; Bambang Suryobroto
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Reasoning is a process to solve the problem. This process needs cognitive functions in thinking, learning, and making decision. Cognitive style is a term to explain human natural preferences in gathering and processing information. Humans appears to reason using two cognitive processing styles; the first system is called as intuitive thinking style that is spontaneous, effortless, and without conscious search, whereas the second system is called as reflective or analytical thinking that works in a deliberate, analytical, procedural, and controllable process. In human context, sometimes people encounter difficult problem or unknown situation that have to be coped by ideas that are both novel and adaptive to the task constraints. People who solve the problem successfully are called creative. Creativity is the base to enhance competitiveness among students that might result in good academic performance. The present study examined cognitive style and creative quality in affecting academic achievement of university students in Indonesia. The result showed that students who used analytical thinking tended to have higher academic success, especially in life science majors. Moreover, it was found that students would need to materialize their creative potential to reach greater academic achievement in demanding classes; for instance, the final year of undergraduate program.

Production of Xylanase by Recombinant Bacillus subtilis DB104 Cultivated in Agroindustrial Waste Medium Is Helianti; Maria Ulfah; Niknik Nurhayati; Dadang Suhendar; Anita Kusuma Finalissari; Agustin Krisna Wardani
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

A recombinant Bacillus subtilis DB104 strain harbouring recombinant plasmid pSKE194 containing an Open Reading Frame (ORF) of endoxylanase and its indigenous promoter from the wild-type B. subtilis AQ1 strain was constructed. This recombinant B. subtilisDB104 strain had higher endoxylanase activity than the nonrecombinant B. subtilisDB104 strain in standard media, such as Luria Bertani (LB) and LB with xylan. The agroindustrial wastes corncobs and tofu liquid waste were chosen as cost-effective carbon and nitrogen sources, respectively, to test the economics of xylanase production using the recombinant B. subtilis DB104 at a larger scale. Submerged fermentation using a 4.5 L working volume fermentor with tofu liquid waste and 4% corncobs produced maximum xylanase activity of 1296 ± 1.2 U/mg (601.7 ± 0.6 U/mL) after 48-hour fermentation at 37°C with 150 rpm agitation; this is more than twofold higher than the activity produced in an Erlenmeyer flask. This is the first report of high xylanase activity produced from recombinant B. subtilis using inexpensive medium. During fermentation, the xylanase degrades corncobs into xylooligosaccharides, showing its potential as an enzyme feed additive or in xylooligosaccharide production.

Butterflies (Lepidoptera: Papilionoidea) of Mount Sago, West Sumatra: Diversity and Flower Preference Ratih Rusman; Tri Atmowidi; Djunijanti Peggie
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Diversity of butterfly depends on the availability of food plant and habitat quality. The aims of this study were to assess diversity and flower preference of butterflies in Mount Sago, West Sumatra, Indonesia. Observations were performed by scan sampling method in four types of habitats, i.e. secondary forests, pine forests, rubber forests, and agricultural areas. Our results showed that at least 184 species of butterflies and 56 species of nectar plants have been identified in Mount Sago. Nymphalid butterfly, Neptis hylas, was the most dominant species of butterflies. Two species, i.e. Trogonoptera brookiana and Troides amphrysus, were found as the protected butterflies. Diversity of butterfly in secondary forests was highest, whereas the lowest diversity was found in pine forest. Papilionid butterflies were found frequently feeding on tube blossoms, nymphalid butterflies on head blossoms, and lycaenid butterflies on flag blossom. Our results also showed that habitat change impacts composition and diversity of butterfly.

Alteration of Leaf Anatomy of Handeuleum (Graptophyllum pictum L. Griff) due to Gamma Irradiation Arrin Rosmala; Nurul Khumaida; Dewi Sukma
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

The leaves of the plant handeuleum (Graptophyllum pictum L. Griff) have long been used for traditional medicine in several regions in Indonesia. This study was aimed to determine the effect of gamma irradiation rate on the anatomy and phytochemical content of the leaf. The rates of gamma rays used were 0, 15, 30, 45, 60, 75, 90, and 105 Gy. Our results showed that gamma ray irradiation rate of 30 Gy produced leaves that contain anthocyanins and carotenoids, with the highest number of stomata and stomatal density compared with control plants. Stomatal index was found highest in the leaves with 45 Gy of gamma irradiation. High-rate gamma ray irradiation produced rigid, thick, and frangible leaves. A high rate of gamma irradiation, i.e. 75, 90, and 105 Gy, produces bigger palisade, sponges, and upper epidermis than the control plants, respectively. Our results showed an association between increasing rate of irradiation with alterations in the structure of leaf anatomy and phytochemical content of handeuleum.

Gene Cloning and Protein Expression of Koi Herpesvirus ORF25 . Murwantoko; Cahya Kurnia Fusiyanto; . Triyanto
HAYATI Journal of Biosciences Vol. 23 No. 3 (2016): July 2016
Publisher : Bogor Agricultural University, Indonesia

Koi herpesvirus (KHV) caused significant morbidity and mortality in koi and common carp (Cyprinus carpio). Glycoprotein has been used for vaccine development as sub unit vaccine against many viruses. KHV ORF25 is one of koi herpesvirus genes which encode a glycoprotein. The objectives of this research are to clone gene KHV ORF25and express its protein. The common carp showing necrosis and white patches of gill which was collected from Magelang was used in this research. Primers were designed to amplify partial ORF25 based on KHV J strain. KHV ORF25 was successfully amplified and cloned in pET32a. Sequence analysis showed that this KHV ORF25 has 99% homology with the sequences of KHV genotype KHV-J, KHV-I, and KHV-U. This ORF was predicted has 3, 23, and 8 B-cell epitopes based on Emini scale, Karplus and Schulz scale, and ElliPro respectively. The KHV ORF25 recombinant protein has been successfully produced in Escherichia coli as an insoluble protein with approximately 45 kDa in size. The high protein production was achieved when the protein induction was done at bacterial density at OD600 as 1.0 with 1-mM isopropyl β-D-1-thiogalactopyranoside (IPTG) and incubated at 37°C for 18 hours. The protein predicted has immunogenicity and the potency as a vaccine is needed to be evaluated.

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