Biotechnology Commons^™

Pertumbuhan Eksplan Meristem Bawang Putih (Allium Sativum L.) Kultivar Tawangmangu Pada Berbagai Komposisi Kinetin Dan Ga3 In Vitro, Y. Sholihin, Erni Suminar, Wieny Heriliya Rizky, G. G. Pitaloka

Jurnal Kultivasi

Bawang putih merupakan komoditas penting di Indonesia. Indonesia merupakan negara terbesar pengimpor bawang putih. Permasalahan yang dihadapi dalam teknik produksi benih secara konvensional menjadi salah satu faktor pembatas tidak optimalnya pengembangan dan penyebaran benih tersebut. Produksi benih in vitro dapat dijadikan sebagai metode alternatif dalam perbanyakan benih sumber kultivar unggul. Penelitian ini bertujuanuntuk mendapatkan komposisi kinetin dan GA3 terbaik pada media dasar MS untuk regenerasi eksplan meristemsecara in vitro.Penelitian dilaksanakan di Laboratorium Kultur JaringanBalai Pengembangan Benih Hortikultura dan Aneka Tanaman Pasir Banteng, Kecamatan Jatinangor, Kabupaten Sumedang, Provinsi Jawa Barat, yang berlangsung dari bulan April hingga Juli 2015. Eksplan yang digunakan …

Cullin-4 Regulates Wingless And Jnk Signaling-Mediated Cell Death In The Drosophila Eye., Meghana Tare, Ankita Sarkar, Shimpi Bedi, Madhuri Kango-Singh, Amit Singh

Biology Faculty Publications

In all multicellular organisms, the fundamental processes of cell proliferation and cell death are crucial for growth regulation during organogenesis. Strict regulation of cell death is important to maintain tissue homeostasis by affecting processes like regulation of cell number, and elimination of unwanted/unfit cells. The developing Drosophila eye is a versatile model to study patterning and growth, where complex signaling pathways regulate growth and cell survival. However, the molecular mechanisms underlying regulation of these processes is not fully understood. In a gain-of-function screen, we found that misexpression of cullin-4 (cul-4), an ubiquitin ligase, can rescue reduced eye mutant phenotypes. Previously, …

Microbial Phytases And Phytate: Exploring Opportunities For Sustainable Phosphorus Management In Agriculture, Nelly P. Balaban, Aliya D. Suleimanova, Lia R. Valeeva, Inna B. Chastukhina, Natalia L. Rudakova, Margarita R. Sharipova, Eugene V. Shakirov

Biological Sciences Faculty Research

Myo-inositol phosphates (phytates) are important biological molecules produced largely by plants to store phosphorus. Phytate is very abundant in many different soils making up a large portion of all soil phosphorus. This review assesses current phytase science from the perspective of its substrate, phytate, by examining the intricate relationship between the phytate-hydrolyzing enzymes and phytate as their substrate. Specifically, we examine available data on phytate’s structural features, distribution in nature and functional roles. The role of phytases and their localization in soil and plant tissues are evaluated. We provide a summary of the current biotechnological advances in using industrial …

Comparative Genomic Analysis Of Two Serotype 1/2b Listeria Monocytogenes Isolates From Analogous Environmental Niches Demonstrates The Influence Of Hypervariable Hotspots In Defining Pathogenesis, Aidan Casey, Kieran Jordan, Aidan Coffey, Edward M. Fox, Olivia Mcauliffe

Department of Biological Sciences Publications

The vast majority of clinical human listeriosis cases are caused by serotype 1/2a, 1/2b, 1/2c, and 4b isolates of Listeria monocytogenes. The ability of L. monocytogenes to establish a systemic listeriosis infection within a host organism relies on a combination of genes that are involved in cell recognition, internalization, evasion of host defenses, and in vitro survival and growth. Recently, whole genome sequencing and comparative genomic analysis have proven to be powerful tools for the identification of these virulence-associated genes in L. monocytogenes. In this study, two serotype 1/2b strains of L. monocytogenes with analogous isolation sources, but …

A Clinical Audit On The Compliance Of Ultrasound Users To The Standard Operating Procedure Of Ultrasonography In A Private Radiologic Academy, Yuliawati Y, Dioso P

ASEAN Journal on Science and Technology for Development

This clinical audit identified the compliance rate of ultrasound users to the standard operating procedures (SOP); and identified the factors that led to a compliance rate of ultrasound human users. The review was conducted for six days in a private radiologic academy in Indonesia. Only 23 subjects selected randomly were audited. Of the 23 participants, there were 11 males and 12 females. Of the 11 males, seven were compliant, and three were non-compliant. Of the 12 females, eight were compliant, and four were non-compliant. The factors that affect the compliance to the SOP were based on the skills of the …

Synthesis And In Vitro Experiment Of Biomaterial Tricalcium Phosphate, Bui X.V

ASEAN Journal on Science and Technology for Development

Calcium phosphate ceramics consist of materials such as hydroxyapatite, tricalcium phosphate (TCP), calcium phosphate cement (CPC), biphasic calcium phosphate, etc. CPCs have been used for filling bone defects in dentistry and orthopedics. Among these materials, β-tricalcium phosphate is suggestedas an ideal candidate for bone graft in hard tissue engineering due to its high biocompatibility, bioactivity and bone bonding. The preparation, as well as the application of this powder material, has been the important topic of research in material science. In this paper, β-tricalcium phosphate (β-TCP), a component that has chemical formulation similar to bone structure, was synthesized by the precipitate …

Wound Healing Post-Mesh Repair ― An Observational Study, Lebbe M.N, Kularajasingham J, Dioso P

ASEAN Journal on Science and Technology for Development

This study identified the best surgical mesh repair techniques for inguinal hernia and prevalence of wound healing post-mesh repair. The cross-sectional study design used cluster sampling for data collection. Of the 120 respondents, 48.3% preferred anterior tension-free mesh repair and 49.2% Lichtenstein mesh repair, both identified as the common surgical techniques in eastern Sri Lanka. About 82.5% of the respondents (n = 99) healed while 17% (n = 21) had recurrence of hernia after one month. Nevertheless, 2.5% of the total respondents said that the hernia repaired after one month but less than two months; and 97.5% of the interviewees …

Knowledge And Caring Attitude Of Sri Lankan Nurses In Providing Care For Dying Patients ― A Cohort Study, Rajudeen M.M, Janoof M., Dioso P

ASEAN Journal on Science and Technology for Development

This research identified evidence of knowledge and caring attitude among Sri Lankan nurses caring for dying patients; and identified the factors affecting nursing care for the dying in the eastern province of Sri Lanka. A quantitative cohort study design was used having questionnaires as the means of collecting the data. The purposive way of sampling selected 120 staff nurses employed in a government hospital as respondents who falls under the inclusion and exclusion criteria.There was significant evidence of caring attitude towards the dying (p = 0.005534) and knowledge on the end-of-life nursing care (p = 0.0004703) for the dying patients. …

Front Cover, Kesmawan Andri Putra

ASEAN Journal on Science and Technology for Development

No abstract provided.

Editorial Board, Kesmawan Andri Putra

ASEAN Journal on Science and Technology for Development

No abstract provided.

Synthesis Of Biphasic Calcium Phosphate And Its Behaviour In Simulated Body Fluid, Bui X.V, Thang T.D

ASEAN Journal on Science and Technology for Development

The main goal of this study is to elaborate and evaluate the physicochemical properties of the synthetic biphasic calcium phosphate (BCP) powder: an associate compound of hydroxyapatite (HA): Ca10(PO4)6(OH)2 and beta-tricalcium phosphate (β-TCP): Ca3(PO4)2. The new compound BCP has two advantages: high bioactivity (HA) and fast biodegradation (β-TCP). The obtained powder of BCP was prepared by the precipitate method. XRD analysis confirmed the synthetic material contained both HA and β-TCP crystalline phases. SEM images showed that the small particles of HA attached to bigger particles of β-TCP in the structure morphology of BCP. The in vitro experiment was carried out …

A Bioinformatics Methodology For The Annotation And Analysis Of Sperm Chromatin Remodeling Proteins In Sequenced Drosophila Species, Zain A. Alvi

Seton Hall University Dissertations and Theses (ETDs)

Spermatogenesis is the process by which mature functional spermatozoa are formed, and is initiated in the stem cell niche of the testes. During the post-meiotic stage of spermatogenesis, spermiogenesis, transition proteins facilitate the transformation of chromatin from a histone-based nucleosome structure to a protamine-based nucleosome structure. This study is aimed at analyzing genomic, transcript, and protein sequences of transition proteins in 13 sequenced Drosophila species. The Drosophila melanogaster spermatid specific transition protein-like protein (Tpl^94D) was used as the reference sequence in this study. An extensive bioinformatics approach was employed in establishing the Tpl^94D orthologs. We identified …

Identification And Characterization Of Genes Involved In Metabolism Of N5 Monoene Precursors To N5 Anacardic Acids In The Trichomes Of Pelargonium X Hortorum., Richa A. Singhal

Electronic Theses and Dissertations

Unusual monoenoic fatty acids (UMFA’s) and specialized metabolites called anacardic acids (AnAc) are produced in glandular trichomes of Pelargonium ´ hortorum (geranium). The UMFA’s, 16:1^∆11 and 18:1^∆13 are precursors for the synthesis of unsaturated AnAc 22:1n5and 24:1n5 that contribute to pest resistance in geraniums. UMFAs and their derived AnAc metabolites not only provide a useful biological marker that differentiates the biosynthetic pathway for unusual mononenes from the common fatty acids (i.e. stearic, palmitic, oleic, linoleic and linolenic) but also have industrial, medical and agricultural applications. Fatty acid biosynthesis enzymes like acyl carrier proteins (ACPs); thioesterases (TEs) and β-ketoacyl-ACP …

Examination Of Pseudomonas Fluorescence As A Recombinant Expression Host: Cloning, Expression, And Chromatography, Ahmed K.Ali Elmasheiti

Graduate Theses and Dissertations

In an effort to expand the pool of bacterium useful for biotechnology applications, Pseudomonas fluorescens, a common gram negative microbe, was examined for its ability to function in a recombinant setting. P. fluorescens is ubiquitous in nature and was initially identified as a soil bacterium found in dirt and is typically associated with plant material. Past literature indicates that it shared characteristics common to Escherichia coli and Bacillus subtilis, including simple growth conditions and potential cloning vectors, providing motivation to look into both the upstream and downstream characteristics of this bacterium. First, it was demonstrated that P. fluorescens could be …

The Intestinal Copper Exporter Cua-1 Is Required For Systemic Copper Homeostasis In Caenorhabditis Elegans, Haarin Chun, Anuj Kumar Sharma, Jaekwon Lee, Jefferson Chan, Shang Jia, Byung-Eun Kim

Department of Biochemistry: Faculty Publications

Copper plays key catalytic and regulatory roles in biochemical processes essential for normal growth, development, and health. Defects in copper metabolism cause Menkes and Wilson’s disease, myeloneuropathy, and cardiovascular disease and are associated with other pathophysiological states. Consequently, it is critical to understand the mechanisms by which organisms control the acquisition, distribution, and utilization of copper. The intestinal enterocyte is a key regulatory point for copper absorption into the body; however, the mechanisms by which intestinal cells transport copper to maintain organismal copper homeostasis are poorly understood. Here, we identify a mechanism by which organismal copper homeostasis is maintained by …

Development Of In Vivo Systems For Detecting And Studying Ribosome Inhibition By Small Molecules, Shijie Huang

Chemistry and Chemical Biology ETDs

The ribosome is the quintessential antibacterial drug target, with many structurally and mechanistically distinct classes of antibacterial agents acting by inhibiting ribosome function. Detecting and quantifying ribosome inhibition by small molecules and investigating their binding modes and mechanisms of action are critical to antibacterial drug discovery and development efforts. To develop a ribosome inhibition assay that is operationally simple, yet provides direct information on the drug target and the mechanism of action, we have developed engineered E. coli strains harboring an orthogonal ribosome controlled green fluorescent protein reporter that produce fluorescent signal when the O-ribosome is inhibited. As a proof …

Assessing The Risk Of Resistance Evolution, Adult And Larval Susceptibility, And Sublethal Effects After Exposure Of Corn Rootworms To Vacuolar Atpase-A And Snf7 Dsrnas, Adriano Elias Pereira

Department of Entomology: Dissertations, Theses, and Student Research

Corn rootworms are Diabroticite beetles from the genus Diabrotica and include the western corn rootworm (WCR), Diabrotica virgifera virgifera LeConte, and the northern corn rootworm, D. barberi Smith & Lawrence, as the most important pests in the U.S. Corn Belt. The southern corn rootworm (SCR), D. undecimpunctata howardi Barber, is considered a polyphagous plant pest and feeds in a wide variety of plants including peanuts, cucurbits, soybeans, and especially corn. Resistance to control methods including behavioral resistance to crop rotation and to corn hybrids expressing Bacillus thuringiensis Berliner toxins in WCR has frequently been reported. SCR has been considered a …

The Prevalence Of Streptococcus Pyogenes And Its Emm Gene Types Among School Children In Ai Ain, Uae, Fatima Hammad Ali Al Shamisi

Theses

Streptococcus pyogenes, also known as Group a streptococcus (GAS), causes a wide variety of diseases in children and adults, and it frequently infects the pharynx and skin; pharyngitis and tonsillitis are one of the commonest diseases caused by this pathogen. GAS evaded by many virulence factors, however, the most significant part is the M protein, which plays a major role in its pathogenicity. Over 225 M protein types have been identified so far by the emm typing technique. Identification and emm typing of GAS is an essential part of epidemiological and pathogenic studies of streptococcal diseases, as different regions of …

Microarray Analysis Of Arabidopsis Wrky33 Mutants In Response To The Necrotrophic Fungus Botrytis Cinerea, Shamma Saeed Salem Al Shamsi

Theses

Plants are exposed to many environmental stresses that affect their growth and development. These stresses include biotic stresses (via organisms) and abiotic stresses (via environment). Plants respond to these stresses by transcriptional reprogramming and different signaling pathways. Arabidopsis thaliana has shown great sensitivity to the biotic stress Botrytis cinerea. The WRKY33 gene plays an important role in plant defense mechanism against this pathogen. The overall goal is to identify common regulated genes of wrky33 mutant and 35S:WRKY33 over expressing transgenic lines in response to B. cinerea; ultimately to improve plant stress tolerance in Arabidopsis. The specific aims are to: (1) …

Large-Scale Off-Target Identification Using Fast And Accurate Dual Regularized One- Class Collaborative Filtering And Its Application To Drug Repurposing, Hansaim Lim, Aleksandar Poleksic, Yuan Yao, Hanghang Tong, Di He, Luke Zhuang, Patrick Meng, Lei Xie

Publications and Research

Target-based screening is one of the major approaches in drug discovery. Besides the intended target, unexpected drug off-target interactions often occur, and many of them have not been recognized and characterized. The off-target interactions can be responsible for either therapeutic or side effects. Thus, identifying the genome-wide off-targets of lead compounds or existing drugs will be critical for designing effective and safe drugs, and providing new opportunities for drug repurposing. Although many computational methods have been developed to predict drug-target interactions, they are either less accurate than the one that we are proposing here or computationally too intensive, thereby limiting …

Microfluidic Cantilever Detects Bacteria And Measures Their Susceptibility To Antibiotics In Small Confined Volumes, Hashem Etayash, M. F. Khan, Kamaljit Kaur, Thomas Thundat

Pharmacy Faculty Articles and Research

In the fight against drug-resistant bacteria, accurate and high-throughput detection is essential. Here, a bimaterial microcantilever with an embedded microfluidic channel with internal surfaces chemically or physically functionalized with receptors selectively captures the bacteria passing through the channel. Bacterial adsorption inside the cantilever results in changes in the resonance frequency (mass) and cantilever deflection (adsorption stress). The excitation of trapped bacteria using infrared radiation (IR) causes the cantilever to deflect in proportion to the infrared absorption of the bacteria, providing a nanomechanical infrared spectrum for selective identification. We demonstrate the in situ detection and discrimination of Listeria monocytogenes at a …

Structural Determinants Allowing Transferase Activity In Sensitive To Freezing 2, Classified As A Family I Glycosyl Hydrolase, Rebecca Roston, Kun Wang, Leslie A. Kuhn, Christoph Benning

Department of Biochemistry: Faculty Publications

Background: SENSITIVE TO FREEZING 2 (SFR2) is classified as a glycosyl hydrolase, and by using glycosyltransferase activity, it modifies membrane lipids to promote freeze tolerance.

Results: Although the active site of SFR2 is identical to hydrolases, adjacent loop regions contribute to its transferase activity.

Conclusion: Transferase activity evolved by modifications external to the core catalytic site.

Significance: Defined structure-function relationships will inform engineering of transferases and freeze tolerance.

Sending Out An Sos: Mitochondria As A Signaling Hub, Iryna Bohovych, Oleh Khalimonchuk

Department of Biochemistry: Faculty Publications

Normal cellular physiology is critically dependent on numerous mitochondrial activities including energy conversion, cofactor and precursor metabolite synthesis, and regulation of ion and redox homeostasis. Advances in mitochondrial research during the last two decades provide solid evidence that these organelles are deeply integrated with the rest of the cell and multiple mechanisms are in place to monitor and communicate functional states of mitochondria. In many cases, however, the exact molecular nature of various mitochondria-to-cell communication pathways is only beginning to emerge. Here, we review various signals emitted by distressed or dysfunctional mitochondria and the stress-responsive pathways activated in response to …

Optimizing Gdna Purification And Qpcr Techniques For Specific Detection And Enumeration Of Probiotic Bacteria, Katelynn C. Lee, Jennifer Vanderkelen, Christopher Kitts

STAR Program Research Presentations

Probiotics are live microorganisms, like bacteria and yeast, which are thought to provide health benefits when ingested. Large manufacturers produce blends of probiotics for supplementing the diets of agriculturally important animals. Commercial probiotic products are labeled with the number of cells present at the time of manufacture. Our assignment was to develop an assay which can be used to quantify the number of specific lactic acid bacteria present in certain probiotic products, thus verifying the number reported on the product labels. This quantification process involves isolating genomic DNA (gDNA) from the given samples and then running the DNA through a …

Pupuk Anorganik Sebagai Alternatif Media Untuk Pertumbuhan Eksplan Nilam (Pogostemon Cablin Benth) Kultivar Sidikalang Dan Tapaktuan Secara In-Vitro, Suseno Amien, M. F. Wiguna

Jurnal Kultivasi

Kultur jaringan selama ini dipahami oleh sebagian masyarakat merupakan suatu teknologi yang mahal, terutama dalam menyediakan bahan kimia untuk media. Hasil percobaan sebelumnya menunjukkan bahwa percobaan dengan media pupuk anorganik dapat digunakan sebagi media tanam in-vitro. Namun media tersebut belum diteliti secara rinci manfaatnya untuk tanaman nilam. Penelitian ini dilakukan untuk memperoleh media pupuk anorganik yang sesuai untuk pertumbuhan kultivar nilam (Pogostemon cablin Benth) Sidikalang dan Tapak Tuan. Penelitian dilakukan di laboratorium teknologi kultur jaringan Pemuliaan Tanaman Fakultas Pertanian Universitas Padjadjaran dari bulan Mei sampai Agustus 2010. Rancangan yang digunakan adalah rancangan acak lengkap pola faktorial dengan dua faktor perlakuan …

Pengujian Efektivitas Berbagai Jenis Dan Konsentrasi Sitokinin Terhadap Multiplikasi Tunas Mikro Pisang (Musa Paradisiaca L.) Secara In Vitro, Bella Dian Ratnasari., Erni Suminar, Anne Nuraini, Ade Ismail

Jurnal Kultivasi

Perbanyakan tanaman pisang secara konvensional dengan menggunakan bonggol atau anakan (sucker) secara terus menerus dapat menurunkan kualitas dan memerlukan waktu lama serta meningkatkan terjadinya serangan penyakit. Oleh karena itu, suatu upaya untuk menghasilkan bibit yang memiliki kualitas baik dalam waktu yang cepat dapat menggunakan kultur in vitro. Percobaan ini bertujuan untuk memperoleh laju multiplikasi yang tinggi dengan penggunaan salah satu jenis dan konsentrasi sitokinin pada kultur in vitro tanaman pisang kepok kuning. Percobaan dilakukan pada bulan Oktober hingga Desember 2015 di Laboratorium Kultur Jaringan Teknologi Benih Fakultas Pertanian Universitas Padjadjaran. Rancangan percobaan menggunakan Rancangan Acak Lengkap (RAL) yang terdiri dari …

Contribution Of A Putative Up Element Dna Sequence To The Activity Of A Newly Identified Phage Promoter, Courtney Hamilton

Mahurin Honors College Capstone Experience/Thesis Projects

In transcription, a universal step in gene expression, information from a DNA sequence is copied into RNA. A key component in gene expression is the promoter sequence, a region of DNA to which RNA polymerase binds during the initiation of transcription of downstream genes. Most bacterial promoters contain a -10 and a -35 sequence that are bound by the RNA polymerase. Some promoters also contain an Upstream Promoter (UP) element. UP elements have been shown to boost promoter activity. We recently identified a new promoter in a mutant bacteriophage that grows on a bacterial host that prevents antitermination of phage …

Design And Development Of A Plasmid Vector For Protein Expression And Purification, Mahima Grover, Craig Sweet, David H. Thompson

The Summer Undergraduate Research Fellowship (SURF) Symposium

Production and isolation of proteins are difficult, costly and time-consuming processes. The aim of this project is for the development of plasmids, which allow for streamlined production and isolation of proteins. To allow for modular insertion of varying segments of DNA we are using ‘recursive directional ligation by plasmid reconstruction’. This technique uses type II restriction endonucleases, which cut downstream from their recognition site allowing multiple insertions without losing a restriction site. Using this process, we can ligate multiple DNA sequences together and express them to be able to construct a scar less fusion protein. In order to accomplish this, …

The Effect Of An Enhanced Isopentenyl Monophosphate Pool On Terpenoid Biosynthesis In Vivo, Evan T. Adams, Laura K. Henry, Dr. Natalia Dudareva

The Summer Undergraduate Research Fellowship (SURF) Symposium

Found in all living organisms, terpenoids make up the largest group of natural products and are essential compounds for many major processes, including photosynthesis, respiration, hormone production, and electron transport. Additionally, they have commercial and medical value in products including fragrances, cosmetics, and medicines. Terpenoids originate from the five-carbon building blocks isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), which are synthesized by the mevalonic acid (MVA) and methylerithritol phosphate (MEP) pathways. An alternative MVA pathway was discovered in Archaea with the final two enzymes being phosphomevalonate decarboxylase (MPD) and isopentenyl phosphate kinase (IPK). Even though this alternative pathway is not …

Optimization Of A Genomic Editing System Using Crispr/Cas9-Induced Site-Specific Gene Integration, Jillian L. Mccool Ms., Nick Hum, Gabriela G. Loots

STAR Program Research Presentations

The CRISPR-Cas system is an adaptive immune system found in bacteria which helps protect against the invasion of other microorganisms. This system induces double stranded breaks at precise genomic loci (1) in which repairs are initiated and insertions of a target are completed in the process. This mechanism can be used in eukaryotic cells in combination with sgRNAs (1) as a tool for genome editing. By using this CRISPR-Cas system, in addition to the “safe harbor locus,” ROSAβ26, the incorporation of a target gene into a site that is not susceptible to gene silencing effects can be achieved through few …