scholarly journals Bioleaching of trace metals from coal ash using local isolate from coal ash ponds

2018 ◽  
Vol 156 ◽  
pp. 03031
Author(s):  
Denvert Pangayao ◽  
Susan Gallardo ◽  
Michael Angelo Promentilla ◽  
Eric van Hullebusch
Keyword(s):  
Polymerase Chain Reaction ◽  
Ph Value ◽  
Coal Ash ◽  
Initial Screening ◽  
Optimum Conditions ◽  
Chain Reaction ◽  
Pseudomonas Spp ◽  
Ash Ponds ◽  
Copper Manganese ◽  
Polymerase Chain

Bioleaching of chromium, copper, manganese and zinc from coal ash were investigated using isolates from coal ash ponds particularly Psuedomonas spp. Six (6) different coal ash ponds were examined however, after initial screening Psuedomonas spp. were only present in three (3) coal ash ponds. Among the three coal ash ponds, results showed that eight (8) putative Pseudomonas spp. isolates were present that were identified using the Polymerase Chain Reaction (PCR). Using the eight putative Pseudomonas spp. for bioleaching at optimum conditions and 15 days, the pH value ranges from 8.26 to 8.84 which was basic in nature. Moreover, the maximum metal leached were 8.04% Cr, 12.05% Cu, 4.34% Mn and 10.63% Zn.

scholarly journals Identification of Clinical Pseudomonas spp. by VITEK 2 Compact System and Species-specific Polymerase Chain Reaction Assay for Identification of Pseudomonas aeruginosa

2020 ◽  
Vol 10 (03) ◽  
pp. 383-388
Author(s):  
Layla Abdulhamed Said ◽  
Sawsan Saeed Hasan ◽  
Saad L. Hamed
Keyword(s):  
Polymerase Chain Reaction ◽  
Pseudomonas Aeruginosa ◽  
Universal Primers ◽  
Local Alignment ◽  
Sequencing Analysis ◽  
Chain Reaction ◽  
Pseudomonas Spp ◽  
Vitek 2 ◽  
Polymerase Chain ◽  
Species Specific

The objective of this study was to isolate, identify, and diagnose Pseudomonas spp. from different clinical sources in Baghdad, Iraq. VITEK 2 compact system identification gram-negative bacteria (ID gNB) cards were used to confirm the identification. Polymerase chain reaction (PCR) technique and sequencing were used for recognition of the 16S rDNA gene, by two pairs of primers, universal primers (930 bp fragments) for recognition of Pseudomonas spp., and Pseudomonas aeruginosa specific species (PASS) primers (956 bp fragments) for differentiation of P. aeruginosa from other species. Amplified PCR products of PASS primers were sent for DNA Sanger sequencing to Macrogen Company, Seoul, Korea; data were compared with the database using the Basic Local Alignment Search Tool (BLAST). Ninety-two Pseudomonas spp., including 86 isolates of P. aeruginosa and 1, 2, 3 isolates of Pseudomonas luteola, Pseudomonas putida, and Pseudomonas fluorescens, respectively, were obtained using VITEK 2 compact system ID gNB cards with a percentage of identification ranging from 91 to 99%. Gene amplification and sequencing results confirm identification ranging from 99 to 100%. After sequencing analysis, eleventh of the P. aeruginosa isolates had been submitted in GenBank National Centre for Biotechnology Information (NCBI) under accession numbers MN630696–MN630707. It was observed that phenotypic tests supported by PCR techniques have enabled to conduct a detailed characterization of Pseudomonas bacteria isolates.

Detection of antibiotic-related genes from bacterial biocontrol agents with polymerase chain reaction

2006 ◽  
Vol 52 (5) ◽  
pp. 476-481 ◽  
Author(s):  
Y Zhang ◽  
W G.D Fernando ◽  
T R. de Kievit ◽  
C Berry ◽  
F Daayf ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Carboxylic Acid ◽  
Bacillus Thuringiensis ◽  
Resistance Gene ◽  
Field Experiments ◽  
Significant Inhibition ◽  
Chain Reaction ◽  
Pseudomonas Spp ◽  
Zwittermicin A ◽  
Polymerase Chain

Pseudomonas chlororaphis PA23, Pseudomonas spp. strain DF41, and Bacillus amyloliquefaciens BS6 consistently inhibit infection of canola petals by Sclerotinia sclerotiorum in both greenhouse and field experiments. Bacillus thuringiensis BS8, Bacillus cereus L, and Bacillus mycoides S have shown significant inhibition against S. sclerotiorum on plate assays. The presence of antibiotic biosynthetic or self-resistance genes in these strains was investigated with polymerase chain reaction and, in one case, Southern blotting. Thirty primers were used to amplify (i) antibiotic biosythetic genes encoding phenazine-1-carboxylic acid, 2,4-diacetylphloroglucinol, pyoluteorin, and pyrrolnitrin, and (ii) the zwittermicin A self-resistance gene. Our findings revealed that the fungal antagonist P. chlororaphis PA23 contains biosynthetic genes for phenazine-1-carboxylic acid and pyrrolnitrin. Moreover, production of these compounds was confirmed by high performance liquid chromatography. Pseudomonas spp. DF41 and B. amyloliquefaciens BS6 do not appear to harbour genes for any of the antibiotics tested. Bacillus thuringiensis BS8, B. cereus L, and B. mycoides S contain the zwittermicin A self-resistance gene. This is the first report of zmaR in B. mycoides.Key words: Pseudomonas, Bacillus, biocontrol, antibiotic genes.

scholarly journals Optimasi Konsentrasi DNA dan MgCl2 pada Reaksi Polymerase Chain Reaction-Random Amplified Polymorphic DNA untuk Analisis Keragaman Genetik Tanaman Faloak (Sterculia quadrifida R.Br) (Optimization of DNA and MgCl2 Concentrations in Polymerase Chain Reacti

2015 ◽  
Vol 5 (1) ◽  
Author(s):  
Uslan Uslan ◽  
Made Pharmawati
Keyword(s):  
Genetic Diversity ◽  
Polymerase Chain Reaction ◽  
Random Amplified Polymorphic Dna ◽  
Optimum Conditions ◽  
Chain Reaction ◽  
Dna Templates ◽  
Clear Band ◽  
Pcr Products ◽  
Polymerase Chain ◽  
Pcr Conditions

Abstrak Faloak  merupakan tanaman yang tumbuh di lahan kritis. Sebagai upaya mendukung pemuliaan dan konservasi tanaman faloak diperlukan informasi keragaman genetiknya. Salah satu metode analisis keragaman genetik adalah menggunakan penanda DNA yang berbasis PCR. Untuk itu diperlukan kondisi PCR (Polymerase Chain Reaction) yang tepat sehingga diperoleh hasil yang dapat dianalisis lebih lanjut. Penelitian ini bertujuan menentukan kondisi optimum PCR-RAPD (Polymerase Chain Reaction-Random Amplified Polymorphic DNA) tanaman faloak. Ekstraksi DNA dilakukan dengan metode CTAB. Optimasi dilakukan dengan menggunakan beberapa konsentrasi DNA cetakan dan MgCl2. Kondisi optimum PCR-RAPD tanaman faloak yang menghasilkan pita produk PCR yang jelas diperoleh  menggunakan 50 ng/ul DNA, 3 mM MgCl2 serta jumlah siklus termal 45 x. Kata kunci : PCR-RAPD, optimasi, tanaman faloak Abstract Faloak is a plant that grows on critical lands. In an effort to support breeding and conservation of faloak, information about its genetic diversity is required. One of the methods of genetic diversity analysis is using PCR-based DNA markers. For that purpose, proper PCR conditions is needed in order to obtain results that can be further analyzed. This study aimed to determine the optimum conditions for PCR-RAPD of faloak plants. DNA extraction was conducted using CTAB. Optimization was done by using several concentrations of DNA templates and MgCl2. The optimum conditions of PCR-RAPD of faloak plants that produce clear band of PCR products were obtained using 50 ng/ ul DNA, 3 mM MgCl2 and 45x thermal cycles Keywords : PCR-RAPD, optimization, faloak plant

High performance Nanogold™-in situ hybridzation and its use in the detection of hybridized and PCR-amplified microscopical preparations

1996 ◽  
Vol 54 ◽  
pp. 896-897
Author(s):  
G. W. Hacker ◽  
I. Zehbe ◽  
J. Hainfeld ◽  
A.-H. Graf ◽  
C. Hauser-Kronberger ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Messenger Rna ◽  
High Performance ◽  
Detection System ◽  
Direct Methods ◽  
Genetic Alterations ◽  
Chain Reaction ◽  
Protein Encoding ◽  
Polymerase Chain

In situ hybridization (ISH) with biotin-labeled probes is increasingly used in histology, histopathology and molecular biology, to detect genetic nucleic acid sequences of interest, such as viruses, genetic alterations and peptide-/protein-encoding messenger RNA (mRNA). In situ polymerase chain reaction (PCR) (PCR in situ hybridization = PISH) and the new in situ self-sustained sequence replication-based amplification (3SR) method even allow the detection of single copies of DNA or RNA in cytological and histological material. However, there is a number of considerable problems with the in situ PCR methods available today: False positives due to mis-priming of DNA breakdown products contained in several types of cells causing non-specific incorporation of label in direct methods, and re-diffusion artefacts of amplicons into previously negative cells have been observed. To avoid these problems, super-sensitive ISH procedures can be used, and it is well known that the sensitivity and outcome of these methods partially depend on the detection system used.

1504: Molecular Diagnosis and Staging of Prostate Cancer Using Clusterin in Real Time Reverse Transcription Polymerase Chain Reaction (RT-PCR)

2006 ◽  
Vol 175 (4S) ◽  
pp. 485-486
Author(s):  
Sabarinath B. Nair ◽  
Christodoulos Pipinikas ◽  
Roger Kirby ◽  
Nick Carter ◽  
Christiane Fenske
Keyword(s):  
Prostate Cancer ◽  
Polymerase Chain Reaction ◽  
Real Time ◽  
Molecular Diagnosis ◽  
Reverse Transcription ◽  
Rt Pcr ◽  
Chain Reaction ◽  
Polymerase Chain

Detection of the Glanzmann's Thrombasthenia Mutations in Arab and Iraqi-Jewish Patients by Polymerase Chain Reaction and Restriction Analysis of Blood or Urine Samples

1991 ◽  
Vol 66 (04) ◽  
pp. 500-504 ◽  
Author(s):  
H Peretz ◽  
U Seligsohn ◽  
E Zwang ◽  
B S Coller ◽  
P J Newman
Keyword(s):  
Polymerase Chain Reaction ◽  
Base Pair ◽  
Restriction Analysis ◽  
Urine Samples ◽  
Chain Reaction ◽  
Base Pairs ◽  
Glanzmann’S Thrombasthenia ◽  
Glanzmann's Thrombasthenia ◽  
Base Pair Deletion ◽  
Polymerase Chain

SummarySevere Glanzmann's thrombasthenia is relatively frequent in Iraqi-Jews and Arabs residing in Israel. We have recently described the mutations responsible for the disease in Iraqi-Jews – an 11 base pair deletion in exon 12 of the glycoprotein IIIa gene, and in Arabs – a 13 base pair deletion at the AG acceptor splice site of exon 4 on the glycoprotein IIb gene. In this communication we show that the Iraqi-Jewish mutation can be identified directly by polymerase chain reaction and gel electrophoresis. With specially designed oligonucleotide primers encompassing the mutation site, an 80 base pair segment amplified in healthy controls was clearly distinguished from the 69 base pair segment produced in patients. Patients from 11 unrelated Iraqi-Jewish families had the same mutation. The Arab mutation was identified by first amplifying a DNA segment consisting of 312 base pairs in controls and of 299 base pairs in patients, and then digestion by a restriction enzyme Stu-1, which recognizes a site that is absent in the mutant gene. In controls the 312 bp segment was digested into 235 and 77 bp fragments, while in patients there was no change in the size of the amplified 299 bp segment. The mutation was found in patients from 3 out of 5 unrelated Arab families. Both Iraqi-Jewish and Arab mutations were detectable in DNA extracted from blood and urine samples. The described simple methods of identifying the mutations should be useful for detection of the numerous potential carriers among the affected kindreds and for prenatal diagnosis using DNA extracted from chorionic villi samples.

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