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All Journal ILMU KELAUTAN: Indonesian Journal of Marine Sciences BULETIN OSEANOGRAFI MARINA Bioma : Berkala Ilmiah Biologi SAINS DAN MATEMATIKA Jurnal Akademika Biologi International Journal of Marine and Aquatic Resource Conservation and Co-existence Prosiding KPSDA Jurnal Bioteknologi & Biosains Indonesia (JBBI) Biosaintifika: Journal of Biology & Biology Education Berkala Bioteknologi NICHE Journal of Tropical Biology Scripta Biologica Cendekia Journal of Pharmacy Jurnal Pasopati : Pengabdian Masyarakat dan Inovasi Pengembangan Teknologi Jurnal Abdimas Ilmiah Citra Bakti (JAICB) Prosiding Konferensi Nasional PKM-CSR Makara Journal of Science
Hermin Pancasakti Kusumaningrum
Biotechnology Study Program , Biology Department, Faculty Of Sains And Natural Sciences, Diponegoro University
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Tingkat Cemaran Mikrobia pada Tanaman Biofarmaka Curcuma domestica setelah Proses Pengeringan Kusumaningrum, Hermin Pancasakti
Prosiding KPSDA Vol 1, No 1 (2015): Prosiding KPSDA 2015
Publisher : Prosiding KPSDA

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (407.295 KB)

Abstract

Solar food processing is an emerging technology that provides good quality foods and economist. Traditional medicinal plants product such as turmeric (C. domestica) drying product from local industries on Gunungpati Semarang have not meet its standards quality yet, in terms of microbial contaminants. The purpose of this research is to test the drying product resulted from  heating process of simplicia by  sunlight and oven. Observations of focusing on microbial contaminant from treatment after  3 month incubation. The research method conducted by drying simplicia of  C. domestica at variant a temperature of 300C, 400C, 500C and 600C for 1, 3, 6, 9, 12, 24, and 48 hours. The results showed that drying at a temperature of 500C and 600C for 24 hours and 48 hours showed the lowest contamination and still in accordance with ISO standard for simplicia which is number of  mold and yeast <1´104 cfu, while the total plate count were <1´107cfu.
Analysis of The Open Reading Frame (ORF) 29-TrnC (GCA) Sequence to Detect Indica and Japonica Sub Species on Upland Rice of Situ Bagendit and Inbred Rice of Ciherang Istiana, Rohma; Kusumaningrum, Hermin Pancasakti; Ferniah, Rejeki Siti
Biosaintifika: Journal of Biology & Biology Education Vol 10, No 1 (2018): April 2018
Publisher : Department of Biology, Faculty of Mathematics and Sciences, Semarang State University . Ro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v10i1.12626

Abstract

The identification and the characterization of genetic diversity of rice was the first step in the rice plant breeding program. This study aimed to detect indica or japonica sub-species on upland rice Situ Bagendit and inbred rice Ciherang using molecular markers ORF 29-TrnC (GCA) on the chloroplast genome. Rice was included to the indica sub-species if the 32 bp insertion on ORF 29-TrnC (GCA) sequence was found, on the contrary, if the deletion 32 bp on ORF 29-TrnC (GCA) was found then it was included to the japonica sub-species. DNA isolation was examined from the leaves of the rice plants, and then it tested quantitatively to determine the transparency and DNA concentration from the isolation results. PCR amplification was performed using a pair of primers CP2 and it was followed by agarose gel electrophoresis. The visualization of the DNA bands used the gel documentation. Sequencing of PCR products produced a long base 390 bp in Situ Bagendit rice and 390 bp in Ciherang rice. Analysis of the sequences showed that the insertions occurred throughout the 32 bp in Situ Bagendit rice and the insertions occurred throughout the 32 bp in Ciherang rice. The results showed that upland rice Situ Bagendit and inbred rice Ciherang were included in the indica sub-species. The knowledge of variety of genetics of rice can be used as bio-information in the plant breeding program. Further, the knowledge can be used to protect in genetic power source, the selection and the composing of superior varieties of rice which is tolerant with kinds of biotic and abiotic factor.
Molecular Characterization of Zinc (Zn) Resistant Bacteria in Banger River, Pekalongan, Indonesia Sasi, Fitri Arum; Kusumaningrum, Hermin Pancasakti; Budiharjo, Anto
Biosaintifika: Journal of Biology & Biology Education Vol 10, No 3 (2018): December 2018
Publisher : Department of Biology, Faculty of Mathematics and Sciences, Semarang State University . Ro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (303.216 KB) | DOI: 10.15294/biosaintifika.v10i3.15835

Abstract

Indigenous bacteria are able to remove the metals contamination in environment. This study aimed to assess the resistance of bacterial species to Zinc (Zn) in Banger River, Pekalongan City. The bacteria from three different parts of Banger River were isolated and inoculated in Zn-selective medium. Then, molecular identification to determine the bacteria species was conducted using polymerase chain reaction (PCR) by applying forward-reverse 16SrRNA gene primers. The sequences analysis was conducted using MUSCLE and MEGA6. There were seven dominant species that possibly resistant to Zn. Approximately, every isolate could reach more than 95 % from 2000 ppm of Zn in the medium. The higher absorption of Zn was found in Z5 isolate. The seven bacteria species were clustered into nine genera i.e. Klebsiela, Xenorhabdus, Cronobacter, Enterobacter, Escherichia, Shigella and Sporomusa known as Gram Negative bacteria and Clostridium and Bacillus as Gram Positive bacteria. In Gram Positive bacteria, especially Bacillus sp, carboxyl group in peptidoglycan play a role as metal binder. In Gram-negative bacteria, lipopolysaccharide (LPS) which is highly anionic component on the outer membrane, able to catch the Zn. Besides that, Enterobacter activates endogen antioxidants such as glutathione peroxidase (GSHPx), glutathione reductase (GR), catalase (CAT) and superoxide dismutase (SOD). The research found there was possible seven novel indigenous bacteria species in Banger that able to remove Zn from the sediment extremely. This finding can be developed as an eco-friendly approach to reduce metals pollution using local microorganisms.
Pemuliaan Tanaman Nilam (Progestemon cablin) Lokal Melalui Perkembangbiakan Vegetatif Kusumaningrum, Hermin Pancasakti; Purbajanti, Endang Dwi; Setiadi, Agus
Bioma : Berkala Ilmiah Biologi Vol. 18, No.2, Tahun 2016
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (337.009 KB) | DOI: 10.14710/bioma.18.2.123-130

Abstract

Patchouli essential oil is an dominant product from Batang but its production has not been able to meet export needs. The main problem in the production of essential oil of patchouli is limited amount of seeds and dry season effect on the growth of patchouli. On the other hand, society units of patchouli essential oil is very dependent on the availability of raw materials  of patchouli. Searching of patchouli local varieties must  develop in order to  encourages of sustainibility of patchouli production. The purpose of this activity is search and propagate patchouli plant from local varieties that can survive in different seasons of the year according to the climatic conditions of Batang. The study was conducted with the search and propagation of patchouli plant varieties used by farmers in Batang which is Sidikalang varieties and local varieties originating from Batang region and the surrounding area. Furthermore, the vegetative propagation using cuttings will be use followed by its growth observation during dry and rainy season. Results showed that the activities of patchouli plant local varieties of Bandungan, Kendal and Batang showed the best growth in the dry season. Key words: patchouli, vegetatif growth, essential oil.
Karakterisasi Genetik Fragmen Gen Penyandi RNA Polimerase Infectious Myonecrosis Virus (IMNV) yang Menginfeksi Udang Vannamei (Litopenaeus vannamei Boone.) dari Lampung, Gresik dan Pontianak Sudjito, Yason Lukman; Handayani, Christina Retna; Kusumaningrum, Hermin Pancasakti; Budiharjo, Anto
Bioma : Berkala Ilmiah Biologi Vol. 16, No.1, Tahun 2014
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (178.652 KB) | DOI: 10.14710/bioma.16.1.18-25

Abstract

A massive death of vannamei shrimp (Litopenaeus vannamei Boone.) due to Infectious Myonecrosis Virus (IMNV) infection has occurred in Indonesia recently and still cannot be eradicated efficiently. The fast reproduction of IMNV depends on the RdRp gene that encodes for RNA polymerase. Genetic characterization of IMNV RdRp gene from Indonesia is important in order to compare with other IMNV to find out genetic variation as a base for combating this virus. IMNV-infected vannamei were taken from major aquaculture region in Indonesia (Lampung, Gresik and Pontianak). RNA polymerase coding genes (12 and 13 region) from infected vannamei were amplified using RT-PCR with appropriate primer. Amplification products were sequenced and the results were analyzed using BioEdit 7.1.3.0, ClustalW2, CLC free workbench 6.6.2. and ClustalX programs. Results showed that homology value of IMNV RdRp gene  from Lampung and Gresik were 98,04-9958% compared with IMNV from Brazil (Acc. No. AY570982). Amino acid analysis revealed homology value of IMNV RdRp gene  from Lampung  and Gresik were 100% and 99.04% compared with IMNV from Brasil. IMNV RdRp gene  from Pontianak cannot be analysed due to low quality of RNA.   Key words: vannamei, IMNV, RdRp, genetic characterization
Chromosomes and Mitotic Cell Division Phase In Onion Roots After 24 Hours Acetoorcein Soaking Time Kusumaningrum, Hermin Pancasakti; Lunggani, Arina Tri; Nurhakim, Muhammad Amal
Bioma : Berkala Ilmiah Biologi Vol. 14, No. 2, Tahun 2012
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (216.889 KB) | DOI: 10.14710/bioma.14.2.46-48

Abstract

Onions (Allium cepa) are usually used in vitro to assess effect of chemical subtances by allowing developing roots to come into contact with substances to be tested. Acetic orcein staining of onion chromosomes has remained a standard method of preparation. However, aceto-orcein stain is corrosive and poisonous chemical substances since it containing oxidising agents such as organic peroxides, the toxic substances which are are cyanides, acid corrosives agents, and  also radioactive substances.  This research study mitotic activity in the roots of onion plants to determine the effects of soaking time of aceto orcein dye on actively dividing root cells. A series of several root tip from each bulb was harvested were soaked in 1, 3 and 24 hours on aceto-orcein stain and processed further for cytological studies by the aceto-orcein squash technique. The research  was carried out to study the effect of to mitotic index and chromosomal aberration  on  onion root. It will determine the percentage of cells that are undergoing mitosis. The squash techniques were used to observe mitosis in the tip of onion root cells during actively mitotic division cells time. Mitotic divisions occur in several phases, consist of prophase, metaphase, anaphase, telophase and interphase. Experiment were repeated six times for every soaking time. The data was analyzed by using T-Test. The result showed that various duration of soaking time significantly influenced the  reduction of mitotic index value. The lowest mitotic index  on glyphosate concentration 100 ppm i.e. 10. 73% and 7.19% for the duration  of soaking time 3 and 6 hours. The highest mitotic index on  glyphosate concentration 0 ppm i.e.  37.71% and 32.76% for the duration  of soaking time 3 and 6 hours. The result also showed that the chromosomal aberration were increased significantly. The lowest  chromosomal aberration  obtained i.e. 2.55% and 2.96% for the duration of aceto orcein soaking time 1, 3 and 24 hours. The highest chromosomal aberration obtained i.e. 21.71% and 36.26% for the duration of soaking time 1,3 and 24 hours. The type of chromosomal aberration were abnormal prophase, stickiness, bridge, abnormal anaphase, clumping chromosome, c- metaphase,  change of nucleous  shape and size. At 72h, their cytotoxic effects on the root tips showed strong growth retardation in high concentrations of all the wastewaters. Compared to the control, treatment with the wastewaters resulted in root growth inhibition with EC50 values of 35, 50 and 62% for bottling, rubber and brewery effluents respectively, and decrease in mitotic index with increasing concentration for all samples and these were statistically significant (p<0.05). Chromosomal aberrations induced in the onion root tip cells were mostly sticky chromosomes and bridges. Chromosomes with disturbed spindles and fragments were also present in appreciable amounts. Based on the EC50 values, the bottling wastewater was most toxic, followed by rubber effluent while effluents from the brewery were least toxic. The findings in this study indicate that there are toxic chemicals present in the wastewaters which are responsible for the observed genotoxic effects on the onion root tip cells. The study also reveals that the Allium test is a useful and reliable tool for the genotoxicity screening of industrial effluents which could be employed by environmental managers before these effluents are finally discharged into the environment.     Key words: chromosomes, onion roots, acetoorcein
Kloning Gen pcbC dari Penicillium chrysogenum ke dalam Plasmid pPICZA untuk Pengembangan Produksi Penisilin G Wiharyani, Risma; Hardianto, Dudi; Kusumaningrum, Hermin Pancasakti; Budiharjo, Anto
Bioma : Berkala Ilmiah Biologi Vol. 16, No.1, Tahun 2014
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (401.015 KB) | DOI: 10.14710/bioma.16.1.33-38

Abstract

Availability of drugs in Indonesia is still limited by the high prices of drugs due to on the imported raw materials that reaches 95%. Developing antibiotic raw materials can be achieved by increasing of penicillin G production, which is the raw material for the formation of semisynthetic penicillin derivatives through the production of 6-aminopenisillanic acid (6-APA). One of the important enzyme in the penicillin G biosynthesis is Isopenisilin N Synthase (IPNS) that encodes by pcbC gene on Penicillium chrysogenum. This study aimed to obtain a recombinant of pcbC gene fragments that is inserted into pPICZA plasmid. Amplification of pcbC gene used pcbC-F and pcbC-R primers. The pcbC gene fragment was inserted into pPICZA vector and then transformed into TOP 10 F’. The results showed that the recombinant of the pcbC gene fragment from P. chrysogenum has been obtained. Analysis of DNA sequences using the BLAST program showed that the pcbC gene fragment has high homology (99%) with the  pcbC gene from P. chrysogenum Wisconsin 54-1255 and P. chrysogenum AS-P-78 which encodes IPNS   Keywords: pcbC Gene, Penicillium chrysogenum, cloning, penicillin G
Pelacakan Gen Sitokrom Oksidase Subunit 1 (Co1) DNA Mitokondria Pada Itik Tegal (Anas sp.) Rahayu, Annisa Rizky; Kusumaningrum, Hermin Pancasakti; Budiharjo, Anto
Bioma : Berkala Ilmiah Biologi Vol. 18, No.2, Tahun 2016
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (119.763 KB) | DOI: 10.14710/bioma.18.2.114-122

Abstract

Itik Tegal adalah salah satu sumber plasma nutfah ternak Indonesia yang belum memiliki informasi asal usul dan identitas genetik, sedangkan ini sangat diperlukan sebagai dasar dalam usaha persilangan dan pemuliaan untuk menghasilkan itik hibrida unggul. Penelitian ini bertujuan untuk mengetahui identitas genetik itik Tegal menggunakan gen sitokrom oksidase subunit 1 (CO1) dengan primer BirdF1 dan BirdR1. Penelitian dilakukan dengan cara isolasi DNA dari otot paha itik, diikuti amplifikasi gen CO1, dan sekuensing. Sekuen gen CO1 digunakan untuk analisis hubungan kekerabatan dengan mengkonstruksi pohon filogenetik menggunakan metode neighbor-joining dengan analisis bootstrap 1.000 ulangan. Model Kimura 2-parameter digunakan untuk menghitung jarak genetik dengan pairwise distance. Hasil penelitian memperoleh fragmen gen CO1 itik Tegal. Fragmen tersebut homolog dengan sekuen gen CO1 Anas platyrhynchos voucher NHMO-BC400. Analisis filogenetik menunjukkan itik Tegal memiliki hubungan kekerabatan paling dekat dengan A. platyrhynchos yang terdistribusi di Skandinavia dan Amerika Utara, A. poecilorhyncha yang terdistribusi di Asia tropis dan timur, serta Tadorna tadorna yang terdistribusi di China. Kata kunci: gen CO1, genetik, itik Tegal
Seleksi Primer LCO – HCO, Primer bird-f1 – HCO Dan Primer bch – bcl Untuk Amplifikasi Gen COI DNA Mitokondria Itik Magelang (Anas javanica) Setiyawan, Sonny Abdi; Budiharjo, Anto; Kusumaningrum, Hermin Pancasakti
Bioma : Berkala Ilmiah Biologi Vol. 16, No.2, Tahun 2014
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (671.668 KB) | DOI: 10.14710/bioma.16.2.83-89

Abstract

Magelang duck is a wild type of local duck from Indonesia. The advantagesof Magelangduckcompare tootherlocalduck from Indonesiaareabilityto livein the highlandsandlowlands and high production of egg and meat. Geneticcharacterization of Magelangduck still not available until now.The aim of the research is selectprimers forampliflying COIgeneof mitochondrialDNAof MagelangduckusingLCO-HCO, bird-f1 -HCO, andbcl-bch primers.The research methodwas DNAisolationfrom Magelangduck. Followed by, selection of primer in silicoto find homologywithin COIsequenceusing ClustalX, Genedoc, and FastPCR programs. Amplification of COIgenewas performedusing PCRwith all primerpairs. Result showed partial homology with all primer in COI sequence. TheamplificationusingtheLCO-HCO primer produced  primerdimer.Primerbirdf1-HCOand bch-bcl primers showed no amplification.   Key words: Magelang duck, COI gene, mitochondrial DNA, primer
Kualitas Simplisia Tanaman Biofarmaka Curcuma domestica Setelah Proses Pemanasan Pada Suhu Dan Waktu Bervariasi Kusumaningrum, Hermin Pancasakti; Kusdiyantini, Endang; Pujiyanto, Sri
Bioma : Berkala Ilmiah Biologi Vol. 17, No.1, Tahun 2015
Publisher : Departemen Biologi, Fakultas Sains dan Matematika, Universitas Diponegoro

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (2518.981 KB) | DOI: 10.14710/bioma.17.1.27-33

Abstract

Curcuma domestica is one of traditional medicinal plants that is found in Gunungpati Semarang. However the dried product do not achieve optimal standard quality for simplicia  in terms of microbial contaminant and in an industrial scale household. Knowledge on how to use  sterilization   to produce better simplicia and reducing contaminant has not been known by farmers, yet. The purpose of this activity was to obtain the best heating treatment on sterilization of Curcuma simplicia using several temperature under sunlight and oven device. It was also want to  show microbial growth after heating at several times and their  influence on the quality of simplicia after treatment. The method was conducted by  simplicia sterilization of C. domestica using sunlight sterilization for a week and using oven at a temperature of 300C, 400C, 500C and 600C for 1, 3, 6, 9, 12, 24, and 48 hours. The results showed that heating at temperature of 500C for 48 hours obtained the best simplicia, followed by heating at a temperature of 600C for 16-48 hours without contaminants after storing period for 3 months.   Key words :Curcuma, sterilization, heat, microbia
Co-Authors Agung Suprihadi Agung Suprihadi Agus Setiadi Agus Subagio Annisa Fadillah Annisa Nur Ayuningtyas Anto Budiharjo Arina Tri Lunggani Asih Rismiarti, Asih Athried Elsima Bintoro Rudi Saputro, Bintoro Rudi Budi Raharjo Christina Ratna Handayani, Christina Ratna Christina Retna Handayani, Christina Retna Clara Yully Diana Ekaristi Denis Denny Nugroho Sugianto Dinda Khairunnisa Dudi Hardianto, Dudi Eiffeliena Nur'aini Fisikaningputri Purwienanti Elke Gildantia Endang Dwi Purbajanti Endang Kusdiyantini Fiona Aqhila Dewi Fitri Arum Sasi, Fitri Arum Furgeva, Natasha Hadi Endrawati Heksa Raihan Hererapratita Aysha Hapsari Hersugondo Hersugondo Herusugondo Herusugondo Hesti Tri Rahayu Imam Misbach Imam Mishbach Indah Sulistyarini Indras Marhaendrajaya Is Helianti IS HELIANTI Istiana, Rohma Ita Widowati Joedono Soedarsono Joedoro Sudarsono Karima, Radhita Lilis Sugiarti Lina Mulyawati Maya Aresteria MG Isworo Rukmi Muhammad Amal Nurhakim, Muhammad Amal Muhammad Anwar Djaelani Muhammad Iskandar Zulkarnain Muhammad Iskandar Zulkarnain Muhammad Mulyadi, Muhammad Muhammad Zainuri Mulyawati, Lina Natasha Furgeva Novia Rahmawati Nurhayati Nurhayati Nurmalisa Rizko Okti Hajeng Kristiadi Rahayu, Annisa Rizky Rejeki Siti Ferniah Retno Hartati Risma Wiharyanti Robertus Triaji Mahendrajaya Roslenawati Roslenawati Rudhi Pribadi Safirah, Dearesty Sarwo Edi Wibowo, Sarwo Edi Shelina Nurunnisa Mawarni Siti Nur Jannah Sonny Abdi Setiyawan, Sonny Abdi Sri Pujiyanto Sri Pujiyanto Sri Pujiyanto Sri Pujiyanto Sri Rustini Sutrisno Anggoro Tia Erfianti Triwibowo Yuwono Wahyu Dewi Utari Haryanti Widianingsih Widianingsih Yann Hardivillier Yason Lukman Sudjito, Yason Lukman Yosef Purwoko Yoshua Mario Sumbodo Yudi Yunanto Yumna Rahmadias Hanifa Yunior William Susanto Yuvita Muliastuti