Our blogs and videos choice: genomic dna extraction

Eppendorf to market Akonni TruTip™ « Frederick County Biotech ...

HAUPPAUGE, N.Y. & FREDERICK, Md.–(BUSINESS WIRE)–Eppendorf North America and Akonni Biosystems today announced they have entered into a joint marketing agreement to promote Akonni TruTip nucleic acid extraction kits configured for use with Eppendorf epMotion automated pipetting systems. Under the agreement, Eppendorf will promote the extraction kits to clinical, clinical research and forensic laboratories in North America – providing users with access to the industry’s most rapid and reliable means to automatically extract PCR-ready DNA and/or RNA from larger volume [more...]

Date: 2010-04-26 16:36:03

Blog posts (38) | Videos (22)

Genome Biology | Full text | Genomic acquisition of a capsular ...

Bacterial strains and genomic DNA extraction. Bacterial cultures were grown in LB media and genomic DNA was extracted using the Qiagen Genomic DNA kit (Qiagen, Hilden, Germany). For morphological characterization, strains were cultured [more...]

Date: 2010-08-27 00:00:00

The MolBio Carnival, third edition | Alles was lebt | ScienceBlogs ...

There are a few methods to do this around, so why should one more on the list be interesting to us? Well, the new one uses next-generation sequencing to look at RNA folding on a whole-genome scale! David presents the paper in a journal club style, summarizing the interesting new data and methods, but also discussing some of the shortcomings. 3) Next up, we have a series of posts by Christopher Dieni at "Bitesize Bio" on the protein modification many of you probably know and love - phosphorylation. In the first post, he gives an overview of the topics he will write about in the following [more...]

Date: 2010-10-04 21:15:46


GENOMIC CHARACTRIZATION OF AEROMONAS HYDROPHILA ISOLATES USING RAPD-PCR TECHNIQUE by Mitali Dhiman and S. S. Mishra Central Inland Fisheries Resear Aeromonas hydrophila are  involved in various disease problems in humans and aquatic  animals and are known to be  phenotypically, serologically and genetically quite diverse. Development and use of a sensitive and specific  diagnostic test is warranted for detection and characterization of this pathogen.In the present study,  Fish  and water samples from river Hooghly were streaked onto Aeromonas selective growth medium (Rimler-shotts [more...]

Date: 2010-10-08 20:08:05

Can Making Science Fun Woo The Next Generation?

Extracting DNA to Make Goo Resembling Strawberry Snot – The National Human Genome Research Institute worked with students to extract DNA from strawberries using a dish soap, table salt, rubbing alcohol, a coffee filter and a plastic bag. The red DNA the students found was drippy and the texture of what comes out of their noses. Students went home with details about the experiment so they could conduct it with family and friends. What’s Green and Good and What’s Poisonous? EPA’s father of green chemistry, Paul Anastas, Ph.D., clad in a white lab coat, led a roundtable of students who [more...]

Date: 2010-10-06 14:04:39

Bio Saga Blog: 5-Day Hands-on Workshop on Molecular Biotechnology ...

Recombinant DNA Technology: Cutting & pasting of DNA molecules (i.e. restriction digestion, ligation, DNA gel eectrophoresis, and gel extraction.) Bioinfo part: Bioinformatics of DNA database / SequenceAnalysis: Pairwise sequence alignment, Multiple sequence alignment, Pattern search.Tools: BLAST, CLUSTALW/X, CLC Bio Main Workbench Genetic Engineering: Transformation and plasmid purification, cloning and sub-cloning, amplification of DNA fragments by polymerase chain reaction (PCR). Bioinfo part: Designing of PCR primers In-silico cloning Searching for homologous and paralogous [more...]

Date: 2010-09-29 05:41:00

Efavirenz Plasma Concentrations and Cytochrome 2B6 Polymorphisms ...

Genomic DNA was extracted from the peripheral whole blood of each subject with a DNA extraction kit (Qiagen, Valencia, CA). CYP2B6 polymorphisms were genotyped by resequencing using primers and polymerase chain reaction (PCR) conditions described by Lamba and associates.15 Sequencing was carried out with an ABI Prism 3700 Automated Sequencer using the PCR primers or internal primers (sequence available on request). Sequences were assembled using the Phred-Phrap-Consed [more...]

Date: 2010-09-22 19:28:38

E. Coli Plasmid Vectors: Methods and Applications (Methods in ...

E. Coli Plasmid Vectors: Methods and Applications (Methods in Molecular Biology) E. Coli Plasmid Vectors: Methods and Applications (Methods in Molecular Biology) (archive) E. Coli Plasmid Vectors: Methods and Applications (Methods in Molecular Biology (Clifton, N.J.), V. 235.) Table of Contents The Function and Organization of Plasmids Finbarr Hayes Choosing a Cloning Vector Andrew Preston Escherichia coli Host Strains Nicola Casali Chemical Transformation of E. coli W. Edward Swords Electroporation of E. coli Claire A. Woodall DNA Transfer by Bacterial Conjugation [more...]

Date: 2004-04-04 08:00:00

LAB TECH – DUKE – Molecular biology/evolution/genomics (Durham, NC ...

DUTIES: Responsibilities will include: DNA and RNA extractions, sample prep for Illumina library construction and sequencing, standard and quantitative real-time PCR, maintenance of live insects in the lab, as well as lab organization, ordering, and management. Experience with any or all of the above is desirable. The first few weeks of the position will involve helping to set up the lab (ordering, etc). Depending on skills and interests, opportunities could also include genome sequence analysis, use of molecular databases, molecular phylogenetics, design of PCR and sequencing primers, field [more...]

Date: 2010-10-11 18:43:41

Knight Science Journalism Tracker » Blog Archive » Science Mag ...

It is now 20 years since passage of procedures by which U.S. native tribes can demand return of human remains and archeological items taken from public lands and since placed in museums or other institutions. It has from the start meant not only that deep ethical wrongs may be corrected, but that research on the prehistory of North America can be hindered. Looted graveyards and displayed remains in glass cases can be deeply offensive both to the relatives of the people in the graves as well as to most right-minded people generally. But how does one identify which modern groups can make valid [more...]

Date: 2010-10-08 16:21:03

Consumer Reports Health Blog: Should you screen your genes at ...

UPDATE: Jim Cohn, a Walgreens spokesman, emailed us this statement this morning: "In light of the FDA contacting Pathway Genomics about its genetic test kit and anticipated ongoing discussions between the two parties, we’ve elected not to move forward with offering the Pathway product to our customers until we have further clarity on this matter." Absolutely about time. Dr's have hidden things and used thier control long enough. We have a right to know, even if it is flawed, what makes us who we are. Long ago, the idea that the earth was round was considered dangerous. Then it simply [more...]

Date: 2010-05-12 21:10:58

Targeted sequence capture - Nimblegen + GS Junior - SEQanswers

I would like to take 40-50 primary tumors and extract genomic DNA, create a custom array chip that will capture my regions of interest (three well-characterized genes that are 50-100kb in length). Sequence these regions across all tumors and look at the genetic variation present therein. I am hoping to use a GS Junior to do the sequencing (that works right?) and they recommend NimbleGen capture arrays. Does this sound feasible?? Much [more...]

Date: 2010-10-11 22:07:19

Genomic DNA Extraction from Rice Leaves(Modified CTAB Method ...

Genomic DNA Extraction from Rice Leaves(Modified CTAB Method). Posted on August 1, 2010 by admin. 1. Grind young leaf tissues. Place about 50ul ground tissues into 2ml microtubes. Add 500 ul of 2x CTAB buffer warmed to 65oC and [more...]

Date: 2008-01-07 08:00:00

Free molecular biology software for Macs | Bioinformatics Blog

Posted on the October 12th, 2010 under Free mac software by bioinformatics-blog 1. Serial Cloner Serial Cloner is fantastic all-in-one workbench; import and manipulate sequences, construct plasmid and restriction site maps, determine %GC and fragment TM, extract and ligate fragments, perform virtual PCR… and lots more, all in one window using a very intuitive graphical interface. 2. 4Peaks 4Peaks is an extremely user friendly DNA sequence chromatogram viewer and editor from the extremely talented guys at Mekentosj. It’s miles better than any of it’s clunky counterparts… try it, [more...]

Date: 2010-10-12 11:08:47

dna sequencing

DNA sequencing reactions all use a primer to initiate DNA synthesis.  A Quicktime animation of how dideoxy nucleotides are incorporated into DNA in sequencing reactions. Nucleic acid sequence This sequence is written as a succession of letters representing a real or hypothetical DNA molecule or Sequences can be read from the biological raw material through DNA . DNA Sequencing – Real Time DNA analysis Information With the latest chellenges in DNA Sequencing, our organization looks to unravel the myths, truths and most essential assets in the deconstruction of genes. DNA Sequencing The [more...]

Date: 2010-07-09 03:20:29

تقنية البلمرة الجزيئية » تعرف عن عملية استخلاص شريط الحمض النووي ...

The VX Viral DNA/RNA Purification CorProtocol™ 25101 allows for walk-away automated preparation of low copy viral DNA/RNA from low total nucleic acid-yielding samples.  Extracted viral DNA/RNA is of high quality and suitable for a wide variety of downstream applications. The default sample volume is 200   µL but can be scaled up to 500 µL with the use of adjustments to this protocol coupled with an alternative run file ( VX_RNA_DNA_CorProtocol_250_500ul_25101_06.CAS4 ) on the instrument.  Increased volumes of certain reagents are required for the extraction of sample volumes greater [more...]

Date: 2010-07-09 16:20:26

DNA sequencing of the Ant – Australia Video Report # 2 | DNA ...

View our step-by-step procedure for extracting DNA and sequencing the ant with Dr. Corrie Moreau in the Pritzker Laboratory at the Field Museum. This is the second installment of a three-part series of video reports document the role of ants in the rainforests of Australia and what their DNA can tell us about climate change and conservation priorities. Dr. Moreau is the Assistant Curator of Insects in the department of zoology at the Field Museum. In February to April of 2010, Dr. Moreauconducted a survey of ant diversity in the Australian Wet Tropics of Queensland. Back in the Pritzker [more...]

Date: 2010-09-30 08:50:10

Basic Principles

Nuclear or genomic DNA is found in all nucleated cells as well as in the reproductive cells (eggs and sperm). The amount of DNA we can expect to find in different cells and types of evidence is found in Table 1. ... The second method is a specialized 'nonorganic' extraction using Chelex beads. Chelex beads can only be used when PCR-based DNA testing is going to be used. The basic DNA extraction procedures, whether organic or non-organic, can be adapted for special [more...]

Date: 2010-08-01 06:59:59

Russian Forensic Mystery Solved - Czar Nicholas II, Anastasia And ...

And whereas autosomal cchromosomal DNA undergoes the process of recombination, where sections of DNA from the mother and the father are mixed resulting in a more distorted genetic history, mitochondrial DNA, which is inherited only from the mother, or non-recombinant part of Y-chromosome DNA, inherited only from the father, allows for the tracing of a more direct genetic lines. All of the Romanov children, including Crown Prince Alexei and his sisters, have the same type of mitochondrial DNA as their mother, Empress Alexandra, who was a granddaughter of Queen Victoria. Prince Philip of [more...]

Date: 2009-03-15 05:00:00

Plasmid v Genomic DNA Extraction:The Difference | Bitesize Bio

If you want to isolate plasmid DNA, you crack your cells open and carry out a miniprep, trying very hard not to get any contaminating genomic DNA in [more...]

Date: 2009-04-16 08:49:09

Extraction of DNA from Fish Fins (Amrita University)

Many different methods and technologies are available for the isolation of genomic DNA. Here, we describe a method for the isolation of PCR-ready genomic DNA from zebra-fish tissues. Video Rating: 0 / 5Source: DNA [more...]

Date: 2010-10-09 19:26:00

Molecular Clinical Lab Scientist

This achievement was unthinkable only 5 years ago. Be part of a leading edge team working with the best genomic tools. Duties include: Perform all aspects of genetic testing such as DNA extraction, PCR, [more...]

Date: 2010-09-19 23:18:22

ISPUB - Identification Of Lipase – Producing Psychrophilic Yeast ...

Lambda HindIII was used as DNA marker. After the electrophoresis, gel was stained with ethidium bromide and documented by the Gel Doc 2000 (Bio-Rad). Purification of PCR product was done by using QiAquick Gel Extraction Kit. Then, the purified PCR product obtained was sequenced and submitted for BLAST (Basic Local Alignment Search Tools) at NCBI (National Center for Biotechnological Information). Lipase assay by titrationActivity of lipase was assayed by titration using oil emulsion (polyvinyl alcohol: olive oil; 3:1) as substrate (Arima et al., 1972). The assay medium consists of 5ml oil [more...]

Date: 2010-08-25 00:51:13

JoVE: Extraction of High Molecular Weight Genomic DNA from Soils ...

Genomic DNA is then isolated using extraction buffer, chloroform-isoamyl alcohol and isopropyl alcohol. The buffers employed for the lysis and extraction steps include guanidine isothiocyanate and hexadecyltrimethylammonium bromide (CTAB) to preserve the integrity of the high molecular weight genomic DNA. Depending on your downstream application, the isolated genomic DNA can be further purified using cesium chloride (CsCl) gradient ultracentrifugation, which reduces impurities including humic acids. The first procedure, extraction, takes approximately 8 hours, excluding DNA quantification [more...]

Date: 2009-11-11 01:30:00

Tessella » Bioinformatics Software Developer

Works with scientists and teams of skilled bioinformaticians to identify business needs and recommends technical solutions Creates and integrates computer algorithms into existing NextGen DNA Sequencing data analysis pipelines Recommends software to analyze and integrate Next Generation sequencing data Integrates community-developed bioinformatics tools into existing data analysis pipelines Ensures issues are identified, tracked, reported on and resolved in a timely manner. Assists in enforcement of project deadlines and schedules Takes input from supervisor and appropriately and accurately [more...]

Date: 2010-08-09 08:00:00

Skin lightening | DNA Sequencing

Regardless of race or ethnic origin, the aim is to most people with any kind of problem to combat pigmentation. Skin may appear darker than normal in concentrated areas, or you may have noticed irregularities noticed the discoloration or freckles. Many people as they age, develop dark spots, sometimes called "age spots". problems of skin pigmentation occurs because the body produces too much melanin. There are good reasons, however, because they want to spenduse a product to lighten skin color. Here are some of them: or to age spots or brown spots o For stains caused by acne or other skin [more...]

Date: 2010-10-08 04:00:39

Comparison of commercial RNA extraction kits for preparation of ...

Comparison of commercial RNA extraction kits for preparation of DNA-free total RNA from Salmonella cells (BMC Research Notes) Background: The isolation of DNA-free RNA is a crucial step in the reverse transcription PCR (RT-PCR). Every RNA extraction procedure results in RNA samples contaminated with genomic DNA, which can cause false-positive outcomes in highly sensitive applications, including a recently developed quantitative real-time PCR (RT-qPCR) assay that targets invA mRNA for the detection of live Salmonella cells. The assay of this specific mRNA can be used to indicate the presence [more...]

Date: 2010-07-27 18:10:32

Gerard Biotech Spin Doctor Genomic DNA isolation kits

**From Tails to PCR in under 2 hours!** +Individual Lypilized tubes can digest samples for PCR in 1-2 hours +15 minute post digest cleanup for +PCR, 30 minute digest for Southerns May be stored safely at room temperature, no need to freeze or aliquot **No column, binding resin, or phenol** +Great yeilds from small samples; 1 mm tail snips, ear punches, young mice +Gentle process will not shear DNA +Eliminates the need for hazardous organic solvents [more...]

Date: 2010-09-29 10:13:26

A robust universal method for extraction of genomic DNA from ...

The intactness of DNA is the keystone of genome-based clinical investigations, where rapid molecular detection of life-threatening bacteria is largely dependent on the isolation of high-quality DNA. Various protocols have been so far developed for genomic DNA isolation from bacteria, most of which have been claimed to be reproducible with relatively good yields of high-quality DNA. Nonetheless, they are not fully applicable to various types of bacteria, their processing cost is relatively high, and some toxic reagents are used. The routine protocols for DNA extraction appear to be [more...]

Date: 2010-08-21 07:44:00

Can I use sheared genomic DNA as starting material of bacterial ...

My question is whether initially sheared genomic dna can be safely used for genome sequencing and assembly by 454 technology. By 'initially', I mean genomic DNA was sheared during extraction process. I attach gel image of my genomic dna samples (marker is lambda dna digested with EcoRI and HindIII). Although I know that dna fragmentation step is involved in standard genome sequencing by GS FLX titanium, I am concerned because I think it might be possible that shearing during extraction can affect randomness of standard fragmentation step and so on. Thanks in [more...]

Date: 2010-10-12 08:03:29

Genomic DNA extraction protocol protocols and methods

Research news, bioproducts, protocols, reagents, forums Genomic DNA extraction protocol High molecular weight genomic DNA extraction protocol: Buffer and reagent: Genomic DNA extraction buffer (250ml): 1M Tris.Cl (pH 8.0) 2.5ml 0.5M EDTA (pH 8.0) 50 ml Pancreatic RNase 5 mg 10% SDS 12.5 ml -------------------------------------------------- Adjust pH to 8.0 and adjust volume to 250ml with ddH2O Saturated phenol (pH 8.0) 10M ammonium acetate (NH4Ac) Protocol: 1. Weigh 0.5-1g fresh tissue and put in motar. Add liquid nitrogen to snap freeze tissue and blend tissue to [more...]

Date: 2006-08-29 00:00:00

DNA Isolation and Modeling « NWABR

This entertaining and inexpensive protocol was adapted from Biotechnology in the Classroom, UC Davis and Diane Sweeney, Biology — Exploring Life. First we, the teacher-students line up for our materials: Dr. Hutchison regales us as we select strawberries and collect materials: This flexible protocol has been used with first graders all the way through high school and administrators. You can make it as in depth as you like. All materials can be bought in a grocery store, there are no expensive reagents. This was my lovely strawberry, in a sealed plastic bag and on a paper towel, [more...]

Date: 2010-03-07 00:00:57

Genomic DNA Extraction » DNA Extraction Protocol Video

Video showing how DNA Extraction protocol should be conducted. It shows how we can extract dna from different organisms. If you want to learn about Genomic DNA Extraction and more about DNA Purifcation you should watch this video. All you need is DNA Extraction Kit. In School or College Lab this DNA Kit is ussually easy to find. Filed under: Genomic DNA Extraction by [more...]

Date: 2010-03-04 08:17:21

DNA: Size Does Matter. But is it Science or Art? « Exploratorium ...

Then I randomly found this website, which starts with the same idea as our DNA Cheek Cell Extraction Demo but takes it to a whole new level:  You send your cheek cells in the mail to their company.  They extract your DNA from your cells, then use PCR to amplify unique sections of DNA in your genome.  This DNA is loaded into a gel and a current is run through the gel to separate the DNA based on size.  UV dye is added to the whole thing to make your DNA strands visible, a photograph is taken, and voila!…a giant canvas print with the color scheme of your choice is ready to hang on your [more...]

Date: 2008-05-14 07:37:47

Thrombosis Journal | Full text | Expression of sterol regulatory ...

DNA was extracted from frozen cardiac muscle samples. The SCAP 2386A>G genotyping was based on PCR amplification, restriction enzyme analysis and DNA electrophoresis. The DNA samples were amplified by PCR, using the primers 5'-TTGTGCTGCGCGGCCACCTCA-3' and 5'-AGGAGGAAAGGGCAGCCGCAC-3'. PCR was performed in a volume of 50 μl. Cycle conditions were 94°C for 4 min, then 28 cycles of 94°C for 1 min, 64°C for 1 min and 72°C for 1 min, with a final extension step of 5 min at 72°C in a PTC-225 thermal cycler (MJ research, Massachusetts, USA). 10% DMSO was included in PCR reaction. The [more...]

Date: 2009-02-18 08:00:00

Evaluation of Five Methods for Total DNA Extraction from Western ...

DNA extraction is a routine step in many insect molecular studies. A variety of methods have been used to isolate DNA molecules from insects, and many commercial kits are available. Extraction methods need to be evaluated for their efficiency, cost, and side effects such as DNA degradation during extraction. Methodology/Principal Findings From individual western corn rootworm beetles, Diabrotica virgifera virgifera, DNA extractions by the SDS method, CTAB method, DNAzol® reagent, Puregene® solutions and DNeasy® column were compared in terms of DNA quantity and quality, cost of materials, [more...]

Date: 2010-08-13 07:00:00

Conservation of Plant Species in DNA Banks | Plant Biotech Blog ...

Although the MBG describes its activity as ‘DNA Banking’, there is no evidence on its website that MBG banks extracted DNA samples.  It is a collection of samples of plant material stored at -20°C, suitable for DNA extraction.  Voucher specimens for these samples are deposited at the MBG or other institutions.  The material is provided to researchers against an agreement for molecular studies but not for commercial purposes such as bioprospecting, or screening for genes of interest in agricultural research. DNA Bank Brazilian Flora Species The Bank at the Rio de Janeiro Botanical [more...]

Date: 2008-09-24 17:57:16

Forensic Serology Information Page

What is Forensic Serology?According to forensic serologist Marcella Jones of www.ForensicMentor.com, forensic serology is the analysis of body fluids as they relate to forensic cases, including DNA analysis. Accordingly, the role of the forensic serologist involves:Examining evidence for the presence of body fluids e.g. blood, semen, hair, tissue, saliva, feces, and urineEvaluating evidence for potential DNA analysisEvaluating species of body fluidsPerform PCR (polymerase chain reaction) based typing of STR (short tandem repeat sequences) of genomic DNA, or mitochondrial sequence analysis of [more...]

Date: 2010-02-04 08:00:00

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