The document summarizes several molecular biology techniques used to analyze DNA, including PCR, RFLP, DGGE, FISH, and clone libraries. PCR is used to amplify a targeted region of DNA using primers. RFLP and DGGE separate DNA fragments of different lengths after restriction enzyme digestion or denaturation to identify sequences. FISH uses fluorescent probes to directly image specific organisms in samples. Clone libraries create collections of DNA fragments for sequencing.
RAPD markers are decamer DNA fragments.
RAPD is a type of PCR reaction.
as the name suggest it is a fast method when compared to the traditional PCR medthod.
RAPD markers are decamer DNA fragments.
RAPD is a type of PCR reaction.
as the name suggest it is a fast method when compared to the traditional PCR medthod.
This presentation talks about 3 ways to detect protein DNA interactions - Chromatin immunoprecipitation (ChIP), yeast one system (Y1H), and some In-silico tools, in brief. Animations might not work.
''Electrophoretic Mobility Shift Assay'' by KATE, Wisdom DeebekeWisdom Deebeke Kate
This assessed presentation was delivered by me, together with other three course mates. The aim of the presentation was to describe the basic principles, methods involved in EMSA, and some of its application in molecular biology to study the interactions between proteins and DNA. Delivered on 9th December, 2013 with Lolomari Songo, Nicholas Leach & Abhay Jethwani.
DNA SEQUENCING METHODS AND STRATEGIES FOR GENOME SEQUENCINGPuneet Kulyana
This presentation will give you a brief idea about the various DNA sequencing methods and various strategies used for genome sequencing and much more vital information related to gene expression and analysis
Concept: reannealing nucleic acids to identify sequence of interest.
Separates DNA/RNA in an agarose gel, then detects specific bands using probe and hybridization.
Hybridization takes advantage of the ability of a single stranded DNA or RNA molecule to find its complement, even in the presence of large amounts of unrelated DNA.
Allows detection of specific bands (DNA fragments or RNA molecules) that have complementary sequence to the probe.
Size bands and quantify abundance of molecule.
This presentation talks about 3 ways to detect protein DNA interactions - Chromatin immunoprecipitation (ChIP), yeast one system (Y1H), and some In-silico tools, in brief. Animations might not work.
''Electrophoretic Mobility Shift Assay'' by KATE, Wisdom DeebekeWisdom Deebeke Kate
This assessed presentation was delivered by me, together with other three course mates. The aim of the presentation was to describe the basic principles, methods involved in EMSA, and some of its application in molecular biology to study the interactions between proteins and DNA. Delivered on 9th December, 2013 with Lolomari Songo, Nicholas Leach & Abhay Jethwani.
DNA SEQUENCING METHODS AND STRATEGIES FOR GENOME SEQUENCINGPuneet Kulyana
This presentation will give you a brief idea about the various DNA sequencing methods and various strategies used for genome sequencing and much more vital information related to gene expression and analysis
Concept: reannealing nucleic acids to identify sequence of interest.
Separates DNA/RNA in an agarose gel, then detects specific bands using probe and hybridization.
Hybridization takes advantage of the ability of a single stranded DNA or RNA molecule to find its complement, even in the presence of large amounts of unrelated DNA.
Allows detection of specific bands (DNA fragments or RNA molecules) that have complementary sequence to the probe.
Size bands and quantify abundance of molecule.
Molecular markers- RFLP, RAPD, AFLP, SNP etc.Cherry
Molecular markers are identifiable DNA sequences used to locate genes associated with specific traits or genetic conditions.
A molecular marker is a specific gene fragment present at a specific position called ‘locus’ (pleural loci) in the genome of a cell.
In the pool of unknown DNA or in a whole chromosome, these molecular markers help in identification of particular sequence of DNA at particular location.
this presentation is about the molecular markers as we all know the molecular markers are the DNA sequences it can be easily detected and its inheritance is easily monitored.so the main basics of the molecular markers is the polymorphic nature so it can used as molecular markers.and this will gives you the idea about AFLP, RFLP, RAPD, SNPS,ETC.
Molecular marker technology in studies on plant genetic diversityChanakya P
A molecular marker is a molecule contained within a sample taken from an organism (biological markers) or other matter. It can be used to reveal certain characteristics about the respective source. DNA, for example, is a molecular marker containing information about genetic disorders, genealogy and the evolutionary history of life. Specific regions of the DNA (genetic markers) are used to diagnose the autosomal recessive genetic disorder cystic fibrosis, taxonomic affinity (phylogenetics) and identity (DNA Barcoding). Further, life forms are known to shed unique chemicals, including DNA, into the environment as evidence of their presence in a particular location.Other biological markers, like proteins, are used in diagnostic tests for complex neurodegenerative disorders, such as Alzheimer's disease. Non-biological molecular markers are also used, for example, in environmental studies.
The methods used for DNA finger printing are the same Molecular markers...so for detailed note on the steps which is explained in DNA typing can be used to study the performance pf markers too...
Polymerase chain reaction (PCR)
Polymerase chain reaction (PCR) is a common laboratory technique used to make many copies (millions or billions) of a particular region of DNA.
June 3, 2024 Anti-Semitism Letter Sent to MIT President Kornbluth and MIT Cor...Levi Shapiro
Letter from the Congress of the United States regarding Anti-Semitism sent June 3rd to MIT President Sally Kornbluth, MIT Corp Chair, Mark Gorenberg
Dear Dr. Kornbluth and Mr. Gorenberg,
The US House of Representatives is deeply concerned by ongoing and pervasive acts of antisemitic
harassment and intimidation at the Massachusetts Institute of Technology (MIT). Failing to act decisively to ensure a safe learning environment for all students would be a grave dereliction of your responsibilities as President of MIT and Chair of the MIT Corporation.
This Congress will not stand idly by and allow an environment hostile to Jewish students to persist. The House believes that your institution is in violation of Title VI of the Civil Rights Act, and the inability or
unwillingness to rectify this violation through action requires accountability.
Postsecondary education is a unique opportunity for students to learn and have their ideas and beliefs challenged. However, universities receiving hundreds of millions of federal funds annually have denied
students that opportunity and have been hijacked to become venues for the promotion of terrorism, antisemitic harassment and intimidation, unlawful encampments, and in some cases, assaults and riots.
The House of Representatives will not countenance the use of federal funds to indoctrinate students into hateful, antisemitic, anti-American supporters of terrorism. Investigations into campus antisemitism by the Committee on Education and the Workforce and the Committee on Ways and Means have been expanded into a Congress-wide probe across all relevant jurisdictions to address this national crisis. The undersigned Committees will conduct oversight into the use of federal funds at MIT and its learning environment under authorities granted to each Committee.
• The Committee on Education and the Workforce has been investigating your institution since December 7, 2023. The Committee has broad jurisdiction over postsecondary education, including its compliance with Title VI of the Civil Rights Act, campus safety concerns over disruptions to the learning environment, and the awarding of federal student aid under the Higher Education Act.
• The Committee on Oversight and Accountability is investigating the sources of funding and other support flowing to groups espousing pro-Hamas propaganda and engaged in antisemitic harassment and intimidation of students. The Committee on Oversight and Accountability is the principal oversight committee of the US House of Representatives and has broad authority to investigate “any matter” at “any time” under House Rule X.
• The Committee on Ways and Means has been investigating several universities since November 15, 2023, when the Committee held a hearing entitled From Ivory Towers to Dark Corners: Investigating the Nexus Between Antisemitism, Tax-Exempt Universities, and Terror Financing. The Committee followed the hearing with letters to those institutions on January 10, 202
Synthetic Fiber Construction in lab .pptxPavel ( NSTU)
Synthetic fiber production is a fascinating and complex field that blends chemistry, engineering, and environmental science. By understanding these aspects, students can gain a comprehensive view of synthetic fiber production, its impact on society and the environment, and the potential for future innovations. Synthetic fibers play a crucial role in modern society, impacting various aspects of daily life, industry, and the environment. ynthetic fibers are integral to modern life, offering a range of benefits from cost-effectiveness and versatility to innovative applications and performance characteristics. While they pose environmental challenges, ongoing research and development aim to create more sustainable and eco-friendly alternatives. Understanding the importance of synthetic fibers helps in appreciating their role in the economy, industry, and daily life, while also emphasizing the need for sustainable practices and innovation.
A Strategic Approach: GenAI in EducationPeter Windle
Artificial Intelligence (AI) technologies such as Generative AI, Image Generators and Large Language Models have had a dramatic impact on teaching, learning and assessment over the past 18 months. The most immediate threat AI posed was to Academic Integrity with Higher Education Institutes (HEIs) focusing their efforts on combating the use of GenAI in assessment. Guidelines were developed for staff and students, policies put in place too. Innovative educators have forged paths in the use of Generative AI for teaching, learning and assessments leading to pockets of transformation springing up across HEIs, often with little or no top-down guidance, support or direction.
This Gasta posits a strategic approach to integrating AI into HEIs to prepare staff, students and the curriculum for an evolving world and workplace. We will highlight the advantages of working with these technologies beyond the realm of teaching, learning and assessment by considering prompt engineering skills, industry impact, curriculum changes, and the need for staff upskilling. In contrast, not engaging strategically with Generative AI poses risks, including falling behind peers, missed opportunities and failing to ensure our graduates remain employable. The rapid evolution of AI technologies necessitates a proactive and strategic approach if we are to remain relevant.
The French Revolution, which began in 1789, was a period of radical social and political upheaval in France. It marked the decline of absolute monarchies, the rise of secular and democratic republics, and the eventual rise of Napoleon Bonaparte. This revolutionary period is crucial in understanding the transition from feudalism to modernity in Europe.
For more information, visit-www.vavaclasses.com
Normal Labour/ Stages of Labour/ Mechanism of LabourWasim Ak
Normal labor is also termed spontaneous labor, defined as the natural physiological process through which the fetus, placenta, and membranes are expelled from the uterus through the birth canal at term (37 to 42 weeks
Introduction to AI for Nonprofits with Tapp NetworkTechSoup
Dive into the world of AI! Experts Jon Hill and Tareq Monaur will guide you through AI's role in enhancing nonprofit websites and basic marketing strategies, making it easy to understand and apply.
1. PCR - Polymerase Chain Reaction
• PCR is an in vitro technique for the amplification of a region of DNA which lies between two regions of
known sequence.
• PCR amplification is achieved by using oligonucleotide primers.
– These are typically short, single stranded oligonucleotides which are complementary to the
outer regions of known sequence.
• The oligonucleotides serve as primers for DNA polymerase and the denatured strands of the large
DNA fragment serves as the template.
– This results in the synthesis of new DNA strands which are complementary to the parent
template strands.
– These new strands have defined 5' ends (the 5' ends of the oligonucleotide primers), whereas
the 3' ends are potentially ambiguous in length.
5. Primer selection
• Primer is an oligonucleotide sequence – will target a specific sequence
of opposite base pairing (A-T, G-C only) of single-stranded nucleic acids
• For example, there is a
– ¼ chance (4-1) of finding an A, G, C or T in any given DNA sequence; there is a
– 1/16 chance (4-2) of finding any dinucleotide sequence (eg. AG); a
– 1/256 chance of finding a given 4-base sequence.
• Thus, a sixteen base sequence will statistically be present only once in
every 416 bases (=4 294 967 296, or 4 billion): this is about the size of
the human or maize genome, and 1000x greater than the genome size of E.
coli.
6. Primer Specificity
• Universal – amplifies ALL bacterial DNA for instance
• Group Specific – amplify all denitrifiers for instance
• Specific – amplify just a given sequence
7. Forward and reverse primers
• If you know the sequence targeted for amplification, you
know the size which the primers should be anealing across
• If you don’t know the sequence… What do you get?
8. DNA Polymerase
• DNA Polymerase is the enzyme responsible for copying the sequence
starting at the primer from the single DNA strand
• Commonly use Taq, an enzyme from the hyperthermophilic organisms
Thermus aquaticus, isolated first at a thermal spring in Yellowstone
National Park
• This enzyme is heat-tolerant useful both because it is thermally
tolerant (survives the melting T of DNA denaturation) which also means
the process is more specific, higher temps result in less mismatch –
more specific replication
9. RFLP
• Restriction Fragment Length Polymorphism
• Cutting a DNA sequence using restriction enzymes into pieces
specific enzymes cut specific places
Starting DNA sequence:
5’-TAATTTCCGTTAGTTCAAGCGTTAGGACC
3’-ATTAAAGGCAATCAAGTTCGCAATAATGG
Enzyme X
5’-TTC-
3”-AAG-
Enzyme X
5’-TTC-
3”-AAG-
5’-TAATTT
3’-ATTAAA
5’-CCGTTAGTT
3’-GGCAATCAA
5’-CAAGCGTTAGGACC
3’-GTTCGCAATAATGG
10. RFLP
• DNA can be processed by RFLP either directly (if you can get enough
DNA from an environment) or from PCR product
• T-RFLP (terminal-RFLP) is in most respects identical except for a
marker on the end of the enzyme
• Works as fingerprinting technique because different organisms with
different DNA sequences will have different lengths of DNA between
identical units targeted by the restriction enzymes
– specificity can again be manipulated with PCR primers
Liu et al. (1997) Appl Environ Microbiol 63:4516-4522
11. Electrophoresis
• Fragmentation products of differing length are separated –
often on an agarose gel bed by electrophoresis, or using a
capilarry electrophoretic separation
12.
13. DGGE
• Denaturing gradient gel electrophoresis
– The hydrogen bonds formed between complimentary base pairs, GC rich regions ‘melt’
(melting=strand separation or denaturation) at higher temperatures than regions that
are AT rich.
• When DNA separated by electrophoresis through a gradient of increasing chemical
denaturant (usually formamide and urea), the mobility of the molecule is retarded at the
concentration at which the DNA strands of low melt domain dissociate.
– The branched structure of the single stranded moiety of the molecule becomes
entangled in the gel matrix and no further movement occurs.
– Complete strand separation is prevented by the presence of a high melting domain,
which is usually artificially created at one end of the molecule by incorporation of a GC
clamp. This is accomplished during PCR amplification using a PCR primer with a 5' tail
consisting of a sequence of 40 GC.
Run DGGE animation here – from http://www.charite.de/bioinf/tgge/
14. RFLP vs. DGGE
DGGE
• Advantages
– Very sensitive to variations in DNA
sequence
– Can excise and sequence DNA in bands
• Limitations
– Somewhat difficult
– ”One band-one species” isn’t always true
– Cannot compare bands between gels
– Only works well with short fragments
(<500 bp), thus limiting phylogenetic
characterization
RFLP
• Advantages
– Relatively easy to do
– Results can be banked for future
comparisons
• Limitations
– Less sensitive phylogenetic resolution than
sequencing
– Each fragment length can potentially
represent a diversity of microorganisms
– Cannot directly sequence restriction
fragments,making identification indirect
15. FISH
• Fluorescent in-situ hybridization
– Design a probe consisting of an oligonucleotide sequence and a
tag
– Degree of specificity is variable!
– Hybridize that oligonucleotide sequence to the rRNA of an
organism – this is temperature and salt content sensitive
– Image using epiflourescence, laser excitation confocal
microscopy
• Technique DIRECTLY images active organisms in a sample
16. 16S gene
16S rRNA
CellCell
membranemembrane
DNA
16S gene
**
*
*
*
*
*
**
* *
* *
*
* * *
Fluorescent in situ hybridisation
(FISH) using DNA probes
TAGCTGGCAGT
AUCGACCGUCACGU
Fluorescein
AU
ProbeProbe
(( 20 bases)20 bases)
Fluorescent in site hybridization
20. FISH variations
• FISH-CARD – instead of a fluorescent probe on oligo
sequence, but another molecule that can then bond to many
fluorescent probes – better signal-to-noise ratio
• FISH-RING – design of oligo sequence to specific genes –
image all organisms with DSR gene or nifH for example