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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 8 Documents

Search results for , issue "Vol. 20 No. 4 (2013): December 2013" : 8 Documents clear

Automated Detection of Binucleated Cell and Micronuclei using CellProfiler 2.0 Software DWI RAMADHANI; SOFIATI PURNAMI
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Micronucleus assay in human peripheral lymphocytes usually used to assess chromosomal damage. Manual scoring of micronuclei can be time consuming and large numbers of binucleated cells have to be analyzed to obtain statistically relevant data. Automation of the micronuclei analysis using image processing analysis software can provide a faster and more reliable analysis of micronucleus assay. Here the used of CellProfiler an open access cell image analysis software for automatic detection of binucleated cells and micronuclei were reported. We aimed to know whether there was a significant difference in the number of binucleated cells and micronuclei that obtained by manual and CellProfiler counting. Wilcoxon Rank test was used for statistical analysis to test H0 hypothesis that there was no significant difference in the number of binucleated cells and micronuclei that obtained by manual and CellProfiler counting. We analyzed 135 images for both manual and CellProfiler counting. Our results showed that there was no significant difference between manual and CellProfiler counting for binucleated cells (P = 0.851) and for micronuclei (P = 0.917). In conclusion, the binucleated cells and micronuclei counting using CellProfiler were comparable but not better than manual counting.

The Comparison of Streptococcus agalactiae Isolated from Fish and Bovine using Multilocus Sequence Typing ANGELA MARIANA LUSIASTUTI; HELGA SEEGER; AGUSTIN INDRAWATI; MICHAEL ZSCHÖCK
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Multilocus sequence typing (MLST) has greater utility for determining the recent ancestral lineage and the relatedness of individual strains. Group B streptococci (GBS) is one of the major causes of subclinical mastitis of dairy cattle in several countries. GBS also sporadically causes epizootic infections in fish. The aim of this study was to compare the evolutionary lineage of fish and bovine isolates in relation to the S. agalactiae global population as a whole by comparing the MLST profiles. Twenty S. agalactiae isolates were obtained from dairy cattle and fish. PCR products were amplified with seven different oligonucleotide primer pairs designed from the NEM316 GBS genome sequence. Clone complexes demonstrated that bovine and fish isolates were separate populations. These findings lead us to conclude that fish S. agalactiae is not a zoonotic agent for bovine. MLST could help clarify the emergence of pathogenic clones and to decide whether the host acts as a reservoir for another pathogenic lineage.

The Genetic Relationships of Grevillea Hybrids Determined by RAPD Marker MADE PHARMAWATI; IAN JAMES MACFARLANE
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Grevillea (Proteaceae) is native to Australia and is known as garden plant. The flowers have high diversity colors, which range over orange, yellow, pink, red and green. It is a large genus, consisted of 357 species. This genus is economically important and there are hundreds of Grevillea hybrids with beautiful color and shape of flower. Information of the genetic relationships of Grevillea hybrids is not available. Ten Grevillea hybrids were used in this study to evaluate the genetic relationships between hybrids and with their parents. PCR-RAPD technique was employed in this study with seven RAPD primers. The dendrogram of Grevillea hybrids was performed using Neighbor-Joining analysis based on genetic distance. The analysis revealed that ‘Moonlight’, ‘Caloundra Gem’, and Little Pink Willie’ were clustered with Grevillea banksii. The three hybrids were hybrid of G. banksii and other Grevillea species. ‘Superb’ was closely related to ‘Robyn Gordon’ as they are hybrid of G. banksii and G. bipinnatifida.

Characterization of cDNA for PMT: a Partial Nicotine Biosynthesis-Related Gene Isolated from Indonesian Local Tobacco (Nicotiana tabacum cv. Sindoro1) SESANTI BASUKI; NURHAJATI MATTJIK; DESTA WIRNAS; . SUWARSO; . SUDARSONO
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Nicotine is the major alkaloid compound in cultivated tobacco (Nicotiana tabacum) that could potentially be converted into carcinogenic compound (nor-nicotine). The PMT gene encoding putrescine N-methyltransferase (PMT) is one of the two key genes that play a prominent role in nicotine biosynthesis. The aimed of this study was to isolate and characterize the cDNA sequence originated from Indonesian local tobacco cv. Sindoro1 (Ntpmt_Sindoro1). The results showed that the Ntpmt_Sindoro1 was 1124 bp in length. This cDNA fragment encodes for 374 amino acid residues. The predicted polypeptide from the cDNA is a hidrophilic protein, and has a predicted molecular weight of 40.95 kDa. The predicted amino acids sequence also showed high similarity to the PMT gene product Nicotiana sp. available in the GenBank data base. The amino acid sequences also exert conserved residues specifically exhibited only by PMT gene originated from N. tabacum. Clustering analysis revealed that Ntpmt_Sindoro1 belongs to the same clade as the PMT3 gene, a member of the N. tabacum PMT gene family. The Ntpmt_Sindoro1 cDNA sequence covering exon1-exon8 of the PMT gene fragment has been registered in the GenBank data base, under the accession number JX978277.

Rye (Secale cereale L.) and Wheat (Triticum aestivum L.) Simple Sequence Repeat Variation within Secale spp. (Poaceae) TATIK CHIKMAWATI; . MIFTAHUDIN; J PERRY GUSTAFSON
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Transferability of 25 rye and 20 wheat simple sequence repeat (SSR) markers were examined across Secale spp. to elucidate their genetic relationships. One hundred percent of rye and 75% of wheat SSR markers could be amplified in weedy and wild forms of Secale. However, only 84% of rye SSR markers were amplified in S. sylvestre indicating that this species had the furthest relation to the cultivated rye. The PCR products resulting from rye SSR tended to have similar size as the original size, while wheat SSRs tended to have a shorter size than that of the original size. Polymorphism in the allelic number and size was found in 68% of the rye and 40% of the wheat SSR markers. Several alleles were unique for the annual and perennial rye taxa, which were counted for 22 and 15%, respectively. Some SSR markers also produced specific alleles that could be used to identify certain taxa. The genetic relationships within the genus Secale based on SSR markers were discussed.

Microsatellite DNA Analysis on the Polyandry of Green Sea Turtle Cheloniamydas DEWI PURNAMA; NEVIATY PUTRI ZAMANI; ACHMAD FARAJALLAH
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Green turtle (Cheloniamydas; Testudines) is included in the group of polyandryanimals, which is single female mated with many male. DNA polymorphism method generally considered to have a high degree of accuracy as compared to other methods to elucidate polyandry phenomena on many animals. In this research, three microsatellite loci were used to identify the number and frequency of genotypes per locus, the number and frequency alleles per locus, and genotypes and number of alleles in the nest. The purpose of this research was to study the reproductive pattern of Cheloniamydas and compensation eggs of males from hatchling’s population in turtle conservation area of Pangumbahan Coastal Park, West Java. The result showed that from 10 nests, we could find 37 genotypes with 11 alleles for D108 locus, 21 genotypes with 9 alleles for B103 locus, and 27 genotypes with 9 alleles for C102 locus. The alleles number of each nest was more than 5 alleles for 5 nests, and more than 4 alleles for the remaining nests. Based on the probabilities of alleles contribution of each parent, the green turtle was polyandry animals.

Genetic Diversity of Klebsiella spp. Isolated from Tempe based on Enterobacterial Repetitive Intergenic Consensus-Polymerase Chain Reaction (ERIC-PCR) TATI BARUS; IVAN HANJAYA; JOANITA SADELI; BIBIANA W LAY; ANTONIUS SUWANTO; ADI YULANDI
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Tempe is an Indonesian fermented food prepared by fermenting dehulled cooked soybeans with Rhizopus oligosporus. Many types of bacteria are also involved during tempe fermentation, and one of these is Klebsiella spp. Some isolates of K. pneumoniae produces vitamin B12 in tempe but it has also been classified as an opportunistic pathogen. For this reason Klebsiella spp. in tempe is important to be studied. The aim of this study was to investigate the genetic diversity of Klebsiella spp. from tempe employing ERIC-PCR method. Sixty-one isolates of Klebsiella have been isolated from sixteen tempe producers in Bogor, Jakarta, Malang, Tengerang, Bandung and Cianjur. 63F and 1387R primers were used to amplify 16S rDNA sequences, and 1R and 1F primers were used for ERIC analysis. The results of this research showed that sixty-one strains of Klebsiella were clustered into 17 groups. Based on ERIC-PCR analysis, isolates of Klebsiella could be grouped into different profiles which some of these groups consisted of isolates with identical ERIC-PCR profiles. Several identical ERIC-PCR profiles were found in tempe from the same producer. There was no correlation observed between genetic similarity among isolates with the origin of tempe.

Antimicrobial Activity of Endemic Herbs from Tangkahan Conservation Forest North Sumatera to Bacteria and Yeast KIKI NURTJAHJA; TATA BINTARA KELANA; DWI SURYANTO; NUNUK PRIYANI; GINTA RIO; DEDI PRIMA PUTRA; DAYAR ARBAIN
HAYATI Journal of Biosciences Vol. 20 No. 4 (2013): December 2013
Publisher : Bogor Agricultural University, Indonesia

Tangkahan Conservation Forest in Karo County, North Sumatera has high biodiversity of endemic herbs. Many species of the wild herbs are well known used as traditional medicine not only by local people but also by people out of the area. The methanol extract of the medicinal wild herbs in Tangkahan Conservation Forest, Karo County to relief skin diseases caused by bacteria and fungi never been studied medically. The antimicrobial activity leave extract of the medicinal herbs to pathogenic microorganisms are studied. The leaves extract of kembu-kembu (Callicarpa candicans), rintih bulung (Piper muricatum), cep-cepan (Castanopsis costata), and sereh kayu (Eugenia grandis), has antimicrobial to bacteria (Bacillus sp., Escherichia coli, Serratia marcescens, Staphylococcus aureus) and yeast (Candida albicans). Toxicity assay of these plants by brine shrimp method using Artemia salina indicates that cep-cepan dan sereh kayu have lethal concentration higher than kembu-kembu and rintih bulung.

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