SSR Markers for DNA Fingerprinting and Diversity Analysis of Sugarcane Cultivars Resistant and Susceptible to Red Rot
|
|
|
- Phoebe Payne
- 5 years ago
- Views:
Transcription
1 Pak-US Science and Technology Co-operative Research Project SSR Markers for DNA Fingerprinting and Diversity Analysis of Sugarcane Cultivars Resistant and Susceptible to Red Rot *Dr. Shahid Afghan, **Dr. Javed Iqbal, ***Dr. Yon-Bao Pan and **Dr. Khushi Mohammad *SSRI Jhang Pakistan **SBS Lahore Pakistan ***ARS-USDA Houma, USA
2 INTRODUCTION Plants are marvelously productive under ideal growing conditions, but ideal growing conditions rarely occurs. More typically, plant encounters abiotic stresses such as water shortage, lack of nutrients, or the biotic stresses in the form of plant pathogens, insect pests or weeds
3 FOOD LOSSES OF THE WORLD
4 SIGNIFICANCE OF MOLECULAR MARKERS DNA profiling markers being wholly genetic are free from environmental modulations and have been looked upon as tools for a large number of applications ranging from localization of a gene to improvement of plant varieties by marker-assisted selection (Fracaro et al., 2005).
5 OBJECTIVES The goal of this research was to reduce the adverse impact of diseases. Identify germplasm with resistance to the major diseases affecting sugarcane. Identify molecular markers that are linked to gene for disease resistance. Priority was given to finding markers for red rot disease.
6 APPROACH To identify and develop germplasm with resistance to the major diseases affecting sugarcane in Pakistan, highly domesticated and wild clones of sugarcane or near relatives were evaluated for resistance to major sugarcane diseases following either natural infection or artificial inoculation. To identify molecular markers that are linked to genes for disease resistance, polymerase chain reaction (PCR) based methods such as SSR were used to identify genetic markers clearly linked to the resistant genes
7 MATERIALS AND METHODS Different known and characteristically studied genotypes of Saccharum spp. Hybrids were cultivated in the field of School of Biological Sciences (SBS), Punjab University, Lahore. Grouping of sugarcane cultivars was made on the basis of their resistance and susceptibility against red rot
8 Methodology Sample collection DNA extraction SSRs screening SSRs analysis Data analysis Comprehensive DNA fingerprinting databases of N. heimii generated for individual identification throughout P. Malaysia
9 Genotyping procedure PCR Electrophoresis Agaros e PAGE Denaturing PAGE Capillar y Visualization Silver staining SybrGreen staining Autoradiography Fluoresce nt dyes
10 Peak:Scan3100 Size Height 10 Area668 1a.fsa Blue a.fsa 3a.fsa 4a.fsa 5a.fsa 6a.fsa 7a.fsa 26 Blue 31 Blue 20 Blue 8 Blue 35 Blue 36 Blue The use of fluorescently labeled primers, combine with automated electrophoresis system greatly simplified the analysis of microsatellite allele sizes Primer1 Primer2 Primer3 Primer Locus 1 Peak: Scan 1919 Size Height 67 Area Locus 2 04b.fsa Green b.fsa 06b.fsa 07b.fsa 13 Green 16 Green 19 Green Locus b.fsa 09b.fsa 10b.fsa 22 Green 2 Green 5 Green Locus b.fsa 8 Green
11 Genotypes Reaction to Red Rot Highly Resistant HSF-240, CPF-237, NSG-555 & CSSG-676 Resistant NSG-311, HOSG-315, CPSG-437, CPSG-3481, CPF-246, CP77-400, SPSG- 79, NSG-59 & CPD-334 Moderately Resistant SPF-213, CPD-335 & SPSG-2453 Moderately Susceptible CPD-346 Susceptible CO-1148, HSF-242, SPSG-394 & SPF-234
12 MATERIALS AND METHODS DNA extraction PCR amplification and capillary electrophoresis SSR fragment analysis were conducted following a high throughput sugarcane genotyping procedure of Pan et al. (2007)
13 MATERIALS AND METHODS Simple sequence repeats (SSRs) or microsatellites are short DNA repeats found in genome of the most eukaryotic organism. These SSRs provide co-dominant Mendalian markers,much more powerful than dominant markers and can be used to determine population genetic structure, kinship, reproductive mode, mapping of useful genes and genetic mapping etc. These dinucleotide and trinucleotide sequences can be used to design primer for the amplification of the these sequences.
14 MATERIALS AND METHODS International Sugarcane Micro-satellite Consortium (ISMC) has designed 221 micro-satellite markers based on the sugarcane genomic DNA sequences. In 2006 Pan et al used these 221 micro-satellite markers to investigate germplasm evaluation and fingerprinting of US cultivars and out of these 67 markers showed robust PCR product. 67 markers were selected 21 highly polymorphic micro-satellite markers to genotype 20 sugarcane cultivars grown in Pakistan
15 MATERIALS AND METHODS The presence of a particular SSR allele was given a score of 1 or A and its absence a score of 0 or C. The overall scorings for the 144 SSR alleles in an affixed sequence order that were amplifiable from all the 21 SSR markers for particular variety constituted its genotyping file as was described by Pan et al. (2007).
16 RESULTS Based on these 21 markers,a clear differentiation between resistant and susceptible cultivars to red rot was established. This information is vital for future breeding programme
17 Table II. Primer sequence, annealing temperature and number of alleles amplified No. SSR Name* Repeat Motif* Forward Primer Sequence (5' to 3') Reverse Primer Sequence (5' to 3') Annealing Temp # Alleles Amplified 1 msscir74 (CGC)9 ACGCAACGCAAAACAACG SMC31CUQ (TC)10 (AC)22 CATGCCAACTTCCAATACAGACT msscir66* (GT)43GC (GT)6 ACTAAAATGGCAAGGGTGGT SMC278CS (TG)19 (AG)25 CATGCCAACTTCCAAACAGACT SMC24DUQ (TG)13 CGCAACGACATATACACTTCGG 64 6
18 RESULTS The resulting genotyping files of all 20 Pakistan varieties were aligned using the Multiple Sequence Alignment program of the DNAMAN software (Lynnon Biosoft, Vaudreuil, Quebec, Canada) to generate a homology tree. The tree allowed the identification of those sequences that were unique for a particular cultivar as well as an indication of how many cultivars could be identified by a particular SSR marker.
19 SSR POLYMORHIC POTENTIAL The 21 SSR markers amplified a total of 144 alleles, of which 135 (93.8 %) were polymorphic. The numbers of alleles produced by each marker varied from 3 to 11, with an average of 6.85 alleles. Markers SMC31CUQ and SMC597 CS produced the largest number of 11 alleles, while marker SMC36BUQ produced the least number of 3 alleles.
20 RESULTS Number of cultivars distinguishable by any SSR marker varied from zero to 20. SMC36BUQ did not generate unique binary sequence for any cultivar, so no cultivar could be identified using this primer. In contrast, markers SMC31CUQ, msscir3 and SMC597CS produced 20 different allelic binary sequence combinations, with each sequence being unique for a particular cultivar.
21 Polymorphism Information Content (PIC) The PIC value shows the ability of a SSR marker to detect polymorphism within a given population that is usually related to the usefulness of that marker in fingerprinting sugarcane cultivars. In this study, the PIC values of the 21 SSR markers varied from 0.4 to 0.84 with a mean of 0.69 (Table III).
22 Table III. Polymorphism content values (PIC) of marker, resolving power of marker and number of cultivars distinguished by each marker pair # Cultivars distinguished PIC # Cultivars distinguished msscir SMC31CUQ SMC703BS SMC851MS
23 Table III. Polymorphism content values (PIC) of marker, resolving power of marker and number of cultivars distinguished by each marker pair # Cultivars distinguished PIC # Cultivars distinguished SMC336BS SMC22DUQ SMC1604SA msscir
24 Table III. Polymorphism content values (PIC) of marker, resolving power of marker and number of cultivars distinguished by each marker pair # Cultivars distinguished PIC # Cultivars distinguished SMC597CS SMC119CG SMC486CG
25 Resolving Power (RP) Resolving power (RP) depended upon the distribution of the alleles within genotypes. The RP values ranged from 0.0 to 5.1 with a mean value of 2.37 (Table IV). In the current study, markers with higher RP values were more informative and could identify more cultivars Three markers, namely, SMC31CUQ, msscir3, and SMC597CS, had RP values greater than 4.9 and could distinguish all the 20 Pakistan sugarcane cultivars.
26 Table IV. Resolving Power value (RP) of Marker and Number of Cultivars Distinguished by Each Marker Pair SSR Name RP # Cultivars distinguished msscir SMC31CUQ msscir msscir
27 Table IV. Resolving Power value (RP) of Marker and Number of Cultivars Distinguished by Each Marker Pair SSR Name RP # Cultivars distinguished SMC1604SA msscir SMC334BS 3.1 7
28 Table IV. Resolving Power value (RP) of Marker and Number of Cultivars Distinguished by Each Marker Pair SSR Name RP # Cultivars distinguished SMC597CS SMC119CG SMC486CG 1.0 2
29 CONCLUSIONS Three SSR markers, namely, SMC31CUQ, msscir3, and SMC597CS, were identified that could discriminate among these 20 Pakistan cultivars. It is possible to use these three SSR markers for precise, efficient and reliable screening of sugarcane genotypes in for RED ROT DISEASE in Pakistan
30 QUESTIONS???
INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS GENEVA
E BMT Guidelines (proj.4) ORIGINAL: English DATE: December 21, 2005 INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS GENEVA GUIDELINES FOR DNA-PROFILING: MOLECULAR MARKER SELECTION AND
Molecular studies (SSR) for screening of genetic variability among direct regenerants of sugarcane clone NIA-98
Molecular studies (R) for screening of genetic variability among direct regenerants of sugarcane clone NIA-98 Dr. Imtiaz A. Khan Pr. cientist / PI sugarcane and molecular marker group NIA-2012 NIA-2010
Marker types. Potato Association of America Frederiction August 9, Allen Van Deynze
Marker types Potato Association of America Frederiction August 9, 2009 Allen Van Deynze Use of DNA Markers in Breeding Germplasm Analysis Fingerprinting of germplasm Arrangement of diversity (clustering,
INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS
ORIGINAL: English DATE: October 21, 2010 INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS GENEVA E GUIDELINES FOR DNA-PROFILING: MOLECULAR MARKER SELECTION AND DATABASE CONSTRUCTION (
WORKING GROUP ON BIOCHEMICAL AND MOLECULAR TECHNIQUES AND DNA PROFILING IN PARTICULAR. Twelfth Session Ottawa, Canada, May 11 to 13, 2010
E BMT/12/9 ORIGINAL: English DATE: April 9, 2010 INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS GENEVA WORKING GROUP ON BIOCHEMICAL AND MOLECULAR TECHNIQUES AND DNA PROFILING IN PARTICULAR
SolCAP. Executive Commitee : David Douches Walter De Jong Robin Buell David Francis Alexandra Stone Lukas Mueller AllenVan Deynze
SolCAP Solanaceae Coordinated Agricultural Project Supported by the National Research Initiative Plant Genome Program of USDA CSREES for the Improvement of Potato and Tomato Executive Commitee : David
PCB Fa Falll l2012
PCB 5065 Fall 2012 Molecular Markers Bassi and Monet (2008) Morphological Markers Cai et al. (2010) JoVE Cytogenetic Markers Boskovic and Tobutt, 1998 Isozyme Markers What Makes a Good DNA Marker? High
Lecture 8: Sequencing and SNP. Sept 15, 2006
Lecture 8: Sequencing and SNP Sept 15, 2006 Announcements Random questioning during literature discussion sessions starts next week for real! Schedule changes Moved QTL lecture up Removed landscape genetics
Using molecular marker technology in studies on plant genetic diversity Final considerations
Using molecular marker technology in studies on plant genetic diversity Final considerations Copyright: IPGRI and Cornell University, 2003 Final considerations 1 Contents! When choosing a technique...!
PCR Techniques. By Ahmad Mansour Mohamed Alzohairy. Department of Genetics, Zagazig University,Zagazig, Egypt
PCR Techniques By Ahmad Mansour Mohamed Alzohairy Department of Genetics, Zagazig University,Zagazig, Egypt 2005 PCR Techniques ISSR PCR Inter-Simple Sequence Repeats (ISSRs) By Ahmad Mansour Mohamed Alzohairy
Authors: Vivek Sharma and Ram Kunwar
Molecular markers types and applications A genetic marker is a gene or known DNA sequence on a chromosome that can be used to identify individuals or species. Why we need Molecular Markers There will be
Current Applications and Future Potential of High Resolution Melting at the National Clonal Germplasm Repository in Corvallis, Oregon
Current Applications and Future Potential of High Resolution Melting at the National Clonal Germplasm Repository in Corvallis, Oregon Nahla Bassil 1, Michael Dossett 2, Vidyasagar Sathuvalli 2, Chad Finn
BIOLOGY - CLUTCH CH.20 - BIOTECHNOLOGY.
!! www.clutchprep.com CONCEPT: DNA CLONING DNA cloning is a technique that inserts a foreign gene into a living host to replicate the gene and produce gene products. Transformation the process by which
PCR. CSIBD Molecular Genetics Course July 12, 2011 Michael Choi, M.D.
PCR CSIBD Molecular Genetics Course July 12, 2011 Michael Choi, M.D. General Outline of the Lecture I. Background II. Basic Principles III. Detection and Analysis of PCR Products IV. Common Applications
GDMS Templates Documentation GDMS Templates Release 1.0
GDMS Templates Documentation GDMS Templates Release 1.0 1 Table of Contents 1. SSR Genotyping Template 03 2. DArT Genotyping Template... 05 3. SNP Genotyping Template.. 08 4. QTL Template.. 09 5. Map Template..
ABSTRACT. tropical and sub-tropical countries. Recent utility of turmeric by the pharmaceutical
ABSTRACT Turmeric (Curcuma longa L; Zingiberaceae) is one of the most important herb in the tropical and sub-tropical countries. Recent utility of turmeric by the pharmaceutical industries as a source
Introduction to some aspects of molecular genetics
Introduction to some aspects of molecular genetics Julius van der Werf (partly based on notes from Margaret Katz) University of New England, Armidale, Australia Genetic and Physical maps of the genome...
What is DNA? Deoxyribonucleic Acid The inherited genetic material that makes us what we are
DNA Basic Genetics What is DNA? DNA is Deoxyribonucleic Acid The inherited genetic material that makes us what we are DNA in the Cell Human Genome ~3 billion base pairs of DNA 30,000-35,000 genes Population-each
BIOLOGY Dr.Locke Lecture# 27 An Introduction to Polymerase Chain Reaction (PCR)
BIOLOGY 207 - Dr.Locke Lecture# 27 An Introduction to Polymerase Chain Reaction (PCR) Required readings and problems: Reading: Open Genetics, Chapter 8.1 Problems: Chapter 8 Optional Griffiths (2008) 9
Chapter 20 Recombinant DNA Technology. Copyright 2009 Pearson Education, Inc.
Chapter 20 Recombinant DNA Technology Copyright 2009 Pearson Education, Inc. 20.1 Recombinant DNA Technology Began with Two Key Tools: Restriction Enzymes and DNA Cloning Vectors Recombinant DNA refers
Population Genetics and Breeding System of Lophophora spp. Martin Terry Sul Ross State University and Cactus Conservation Institute
Population Genetics and Breeding System of Lophophora spp. Martin Terry Sul Ross State University and Cactus Conservation Institute Population Genetics Explain all that, said the Mock Turtle. No, no! The
Development of transcript-associated microsatellite markers in Ancherythoculter nigrocauda and cross-amplification in Culter alburnus
Development of transcript-associated microsatellite markers in Ancherythoculter nigrocauda and cross-amplification in Culter alburnus Y. Sun 1,2, Q. Li 1, G. Wang 1, D. Zhu 1, J. Chen 1 and P. Li 1 1 Wuhan
Overview. Background ~30 min. Lab activity ~50 min. DNA profiling Polymerase Chain Reaction (PCR) Gel Electrophoresis PCR
Overview Day 1: Tuesday Introduction to DNA profiling How do we use DNA to solve crimes? Background Polymerase Chain Reaction (PCR) Gel Electrophoresis Set up PCR Day 2: Wednesday Make and Run Agarose
Characterization of microsatellites in the fungal plant pathogen, Sclerotinia sclerotiorum
1 2 3 4 Characterization of microsatellites in the fungal plant pathogen, Sclerotinia sclerotiorum 5 6 7 8 9 Caroline Sirjusingh and Linda M. Kohn, Department of Botany, University of Toronto at Mississauga,
Comparative assessment of wheat landraces from AWCC, ICARDA and VIR germplasm collections based on the analysis of SSR markers
epublications@scu Southern Cross Plant Science 2008 Comparative assessment of wheat landraces from AWCC, ICARDA and VIR germplasm collections based on the analysis of SSR markers P Strelchenko K Street
WORKING GROUP ON BIOCHEMICAL AND MOLECULAR TECHNIQUES AND DNA PROFILING IN PARTICULAR. Eleventh Session Madrid, September 16 to 18, 2008
ORIGINAL: English DATE: September 16, 2008 INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS GENEVA E WORKING GROUP ON BIOCHEMICAL AND MOLECULAR TECHNIQUES AND DNA PROFILING IN PARTICULAR
Advanced Plant Technology Program Vocabulary
Advanced Plant Technology Program Vocabulary A Below you ll find a list of words (and their simplified definitions) that our researchers use on a daily basis. Abiotic stress (noun): Stress brought on by
Applicazioni biotecnologiche
Applicazioni biotecnologiche Analisi forense Sintesi di proteine ricombinanti Restriction Fragment Length Polymorphism (RFLP) Polymorphism (more fully genetic polymorphism) refers to the simultaneous occurrence
MICROSATELLITE MARKER AND ITS UTILITY
Your full article ( between 500 to 5000 words) - - Do check for grammatical errors or spelling mistakes MICROSATELLITE MARKER AND ITS UTILITY 1 Prasenjit, D., 2 Anirudha, S. K. and 3 Mallar, N.K. 1,2 M.Sc.(Agri.),
STUDY OF VNTR HUMAN POLYMORPHISMS BY PCR
STUDY OF VNTR HUMAN POLYMORPHISMS BY PCR Ref. PCR1 1. OBJECTIVE OF THE EXPERIMENT The objective of this experiment is to introduce students to the principles and practice of Polymerase Chain Reaction (PCR)
Mutations during meiosis and germ line division lead to genetic variation between individuals
Mutations during meiosis and germ line division lead to genetic variation between individuals Types of mutations: point mutations indels (insertion/deletion) copy number variation structural rearrangements
SSR Markers For Assessing The Hybrid Nature Of Two High Yielding Mulberry Varieties
International Journal of Genetic Engineering and Biotechnology. ISSN 0974 3073 Volume 5, Number 2 (2014), pp. 191-196 International Research Publication House http://www.irphouse.com SSR Markers For Assessing
WORKING GROUP ON BIOCHEMICAL AND MOLECULAR TECHNIQUES AND DNA PROFILING IN PARTICULAR. Ninth Session Washington, D.C., June 21 to 23, 2005
ORIGINAL: English DATE: June 1, 2005 INTERNATIONAL UNION FOR THE PROTECTION OF NEW VARIETIES OF PLANTS GENEVA E WORKING GROUP ON BIOCHEMICAL AND MOLECULAR TECHNIQUES AND DNA PROFILING IN PARTICULAR Ninth
Uniparental disomy (UPD) analysis of chromosome 15
YOUR INNOVATIVE RESEARCH Analysis of UPD by STR-PCR Uniparental disomy (UPD) analysis of chromosome 15 Applied Biosystems 3500xL Genetic Analyzer Introduction Researchers at the Laboratory of Medical Genetics
Factors affecting PCR
Lec. 11 Dr. Ahmed K. Ali Factors affecting PCR The sequences of the primers are critical to the success of the experiment, as are the precise temperatures used in the heating and cooling stages of the
AmpFlSTR Identifiler PCR Amplification Kit
Product Bulletin Human Identification AmpFlSTR Identifiler PCR Amplification Kit Fifteen STR (short tandem repeat) loci and Amelogenin co-amplified in a single tube Incorporation of the same proven, reliable
ROLE OF VARIETIES IN INCREASING SUGAR YIELD PER HECTARE
ROLE OF VARIETIES IN INCREASING SUGAR YIELD PER HECTARE DR. MUHAMMAD AFZAL AND MUHAMMAD YASIR RIAZ Sugarcane Research Institute, Faisalabad Sugar Yield Combination of cane yield and sugar recovery Sugar
PCR-based technologies Latest strategies
Using molecular marker technology in studies on plant genetic diversity DNA-based technologies PCR-based technologies Latest strategies (DNA sequencing, ESTs, microarrays, DArT, SNPs) Copyright: IPGRI
I. Gene Cloning & Recombinant DNA. Biotechnology: Figure 1: Restriction Enzyme Activity. Restriction Enzyme:
I. Gene Cloning & Recombinant DNA Biotechnology: Figure 1: Restriction Enzyme Activity Restriction Enzyme: Most restriction enzymes recognize a single short base sequence, or Restriction Site. Restriction
Comparative study of EST-SSR, SSR, RAPD, and ISSR and their transferability analysis in pea, chickpea and mungbean
EUROPEAN ACADEMIC RESEARCH Vol. IV, Issue 2/ May 2016 ISSN 2286-4822 www.euacademic.org Impact Factor: 3.4546 (UIF) DRJI Value: 5.9 (B+) Comparative study of EST-SSR, SSR, RAPD, and ISSR and their transferability
Chapter 20 DNA Technology & Genomics. If we can, should we?
Chapter 20 DNA Technology & Genomics If we can, should we? Biotechnology Genetic manipulation of organisms or their components to make useful products Humans have been doing this for 1,000s of years plant
MOLECULAR CHARACTERIZATION OF LOCALLY ADOPTED SUGARCANE (Saccharum officinarum L.) VARIETIES USING MICROSATELLITE MARKERS ABSTRACT
Ahmed and GardeziThe Journal of Animal & Plant Sciences, 27(1): 2017, Page: The J. 164-174 Anim. Plant Sci. 27(1):2017 ISSN: 1018-7081 MOLECULAR CHARACTERIZATION OF LOCALLY ADOPTED SUGARCANE (Saccharum
Molecular Characterization of Heterotic Groups of Cotton through SSR Markers
International Journal of Current Microbiology and Applied Sciences ISSN: 2319-7706 Volume 7 Number 03 (2018) Journal homepage: http://www.ijcmas.com Original Research Article https://doi.org/10.20546/ijcmas.2018.703.050
Phenotype analysis: biological-biochemical analysis. Genotype analysis: molecular and physical analysis
1 Genetic Analysis Phenotype analysis: biological-biochemical analysis Behaviour under specific environmental conditions Behaviour of specific genetic configurations Behaviour of progeny in crosses - Genotype
Bio Rad PCR Song Lyrics
Bio Rad PCR Song Lyrics There was a time when to amplify DNA, You had to grow tons and tons of tiny cells. (Oooh) Then along came a guy named Dr. Kary Mullis, Said you can amplify in vitro just as well.
Relative Fluorescent Quantitation on Capillary Electrophoresis Systems:
Application Note Relative Fluorescent Quantitation on the 3130 Series Systems Relative Fluorescent Quantitation on Capillary Electrophoresis Systems: Screening for Loss of Heterozygosity in Tumor Samples
Get to Know Your DNA. Every Single Fragment.
HaloPlex HS NGS Target Enrichment System Get to Know Your DNA. Every Single Fragment. High sensitivity detection of rare variants using molecular barcodes How Does Molecular Barcoding Work? HaloPlex HS
A brief introduction to Marker-Assisted Breeding. a BASF Plant Science Company
A brief introduction to Marker-Assisted Breeding a BASF Plant Science Company Gene Expression DNA is stored in chromosomes within the nucleus of each cell RNA Cell Chromosome Gene Isoleucin Proline Valine
Microsatellite markers
Microsatellite markers Review of repetitive sequences 25% 45% 8% 21% 13% 3% Mobile genetic elements: = dispersed repeat included: transposition: moving in the form of DNA by element coding for transposases.
A Comparison of Agarose, Metaphor Agarose, and Polyacrylamide Gel Electrophoresis Systems in Resolving Pawpaw Simple Sequence Repeat Markers
A Comparison of Agarose, Metaphor Agarose, and Polyacrylamide Gel Electrophoresis Systems in Resolving Pawpaw Simple Sequence Repeat Markers Lauren Collins, Jeremiah D. Lowe, and Kirk W. Pomper Land Grant
Phenotype analysis: biological-biochemical analysis. Genotype analysis: molecular and physical analysis
1 Genetic Analysis Phenotype analysis: biological-biochemical analysis Behaviour under specific environmental conditions Behaviour of specific genetic configurations Behaviour of progeny in crosses - Genotype
Genomic Sequencing. Genomic Sequencing. Maj Gen (R) Suhaib Ahmed, HI (M)
Maj Gen (R) Suhaib Ahmed, HI (M) The process of determining the sequence of an unknown DNA is called sequencing. There are many approaches for DNA sequencing. In the last couple of decades automated Sanger
Diversity analysis of some selected rice genotypes through SSRbased molecular markers
J. Bangladesh Agril. Univ. 12(2): 307 311, 2014 ISSN 1810-3030 Diversity analysis of some selected rice genotypes through SSRbased molecular markers M. H. Shahriar 1, A. H. K. Robin 1*, S. N. Begum 2 and
XXII DNA cloning and sequencing. Outline
XXII DNA cloning and sequencing 1) Deriving DNA for cloning Outline 2) Vectors; forming recombinant DNA; cloning DNA; and screening for clones containing recombinant DNA [replica plating and autoradiography;
New sunflower rust projects in the USDA Sunflower Research Unit
New sunflower rust projects in the USDA Sunflower Research Unit Lili Qi, Tom Gulya, Brent Hulke, Brady Vick USDA-ARS Sunflower Unit Rust is becoming a serious threat to the sunflower industry in North
Restriction Enzymes (endonucleases)
In order to understand and eventually manipulate DNA (human or otherwise) an array of DNA technologies have been developed. Here are some of the tools: Restriction Enzymes (endonucleases) In order to manipulate
7.1 Techniques for Producing and Analyzing DNA. SBI4U Ms. Ho-Lau
7.1 Techniques for Producing and Analyzing DNA SBI4U Ms. Ho-Lau What is Biotechnology? From Merriam-Webster: the manipulation of living organisms or their components to produce useful usually commercial
Development and characterization of microsatellite loci in Excentrodendron hsienmu (Chun & How) H.T. Chang & R.H. Miau
Development and characterization of microsatellite loci in Excentrodendron hsienmu (Chun & How) H.T. Chang & R.H. Miau W.H. Shen 1,2,3, Z.H. Li 1, Y.H. Peng 2,3, M.H. Yang 1, Z.Q. Tan 2,3 and W. Zheng
Multiplex Assay Design
Multiplex Assay Design Geeta Bhat, Luminex Molecular Diagnostics; Toronto. APHL/CDC Newborn Screening Molecular Workshop, CDC, Atlanta, GA June 28-30, 2011 Luminex Multiplexed Solutions. For Life. Luminex
Overview: The DNA Toolbox
Overview: The DNA Toolbox Sequencing of the genomes of more than 7,000 species was under way in 2010 DNA sequencing has depended on advances in technology, starting with making recombinant DNA In recombinant
Multiple choice questions (numbers in brackets indicate the number of correct answers)
1 Multiple choice questions (numbers in brackets indicate the number of correct answers) February 1, 2013 1. Ribose is found in Nucleic acids Proteins Lipids RNA DNA (2) 2. Most RNA in cells is transfer
UPIC: Perl scripts to determine the number of SSR markers to run
University of Nebraska - Lincoln DigitalCommons@University of Nebraska - Lincoln Publications from USDA-ARS / UNL Faculty U.S. Department of Agriculture: Agricultural Research Service, Lincoln, Nebraska
BIO 202 Midterm Exam Winter 2007
BIO 202 Midterm Exam Winter 2007 Mario Chevrette Lectures 10-14 : Question 1 (1 point) Which of the following statements is incorrect. a) In contrast to prokaryotic DNA, eukaryotic DNA contains many repetitive
Application of Biotechnology in DNA Fingerprinting and Forensic Analysis. Copyright 2009 Pearson Education, Inc.
Application of Biotechnology in DNA Fingerprinting and Forensic Analysis Introduction to DNA Fingerprinting and Forensics Forensic science intersection of law and science Historic examples Early 1900s
The Polymerase Chain Reaction. Chapter 6: Background
The Polymerase Chain Reaction Chapter 6: Background PCR Amplify= Polymerase Chain Reaction (PCR) Invented in 1984 Applications Invention of PCR Kary Mullis Mile marker 46.58 in April of 1983 Pulled off
Recombinant DNA recombinant DNA DNA cloning gene cloning
DNA Technology Recombinant DNA In recombinant DNA, DNA from two different sources, often two species, are combined into the same DNA molecule. DNA cloning permits production of multiple copies of a specific
Existing potato markers and marker conversions. Walter De Jong PAA Workshop August 2009
Existing potato markers and marker conversions Walter De Jong PAA Workshop August 2009 1 What makes for a good marker? diagnostic for trait of interest robust works even with DNA of poor quality or low
BENG 183 Trey Ideker. Genotyping. To be covered in one 1.5 hr lecture
BENG 183 Trey Ideker Genotyping To be covered in one 1.5 hr lecture Genetic variation: Some basic definitions Allele Alternative form of a genetic locus inherited separately from each parent Polymorphism
Identification of Carnation Varieties Using Microsatellite Markers
Identification of Carnation Varieties Using Microsatellite Markers P. Arens 1, a, D. Esselink 1, Y. Noordijk 1, L. Kodde 1, L. Hof 2, W. Wietsma 2 and B. Vosman 1 1 Plant Breeding, Wageningen UR, P.O.
Map-Based Cloning of Qualitative Plant Genes
Map-Based Cloning of Qualitative Plant Genes Map-based cloning using the genetic relationship between a gene and a marker as the basis for beginning a search for a gene Chromosome walking moving toward
Biotechnology Chapter 20
Biotechnology Chapter 20 DNA Cloning DNA Cloning AKA Plasmid-based transformation or molecular cloning First off-let s sum up what happens. A plasmid is taken from a bacteria A gene is inserted into the
Report of Analyzing Short Tandem Repeats for Parentage Testing
1 Alex Michael Tseng Department of Forensic Medicine, College of Medicine, National Taiwan University Report of Analyzing Short Tandem Repeats for Parentage Testing Introduction In the three billion letter
Identification of Onion Varieties (Allium Cepa L.) of Ukrainian Breeding Using Microsatellite Markers
40 Journal of Pharmaceutical, Chemical and Biological Sciences ISSN: 2348-7658 CODEN: JPCBBG Impact Factor (GIF): 0.701 Impact Factor (SJIF): 3.905 March- May 2017; 5(1):40-44 Published on: 14 May 2017
DETERMINATION OF THE Rh FACTOR BY PCR
DETERMINATION OF THE Rh FACTOR BY PCR Ref.: PCR2 1. EXPERIMENT OBJECTIVE The aim of this experiment is to introduce students to the principles and practice of the Polymerase Chain Reaction (PCR) by studying
Genetics Lecture 21 Recombinant DNA
Genetics Lecture 21 Recombinant DNA Recombinant DNA In 1971, a paper published by Kathleen Danna and Daniel Nathans marked the beginning of the recombinant DNA era. The paper described the isolation of
The Biotechnology Toolbox
Chapter 15 The Biotechnology Toolbox Cutting and Pasting DNA Cutting DNA Restriction endonuclease or restriction enzymes Cellular protection mechanism for infected foreign DNA Recognition and cutting specific
DNA amplification and analysis: minipcr TM Food Safety Lab
Science for everyone, everywhere DNA amplification and analysis: minipcr TM Food Safety Lab Release date: 09 September 2014 Welcome Our goals for today: Review DNA amplification theory Solve a public health
Development and characterization of novel microsatellite markers for Ginkgo biloba using 454 pyrosequencing
Development and characterization of novel microsatellite markers for Ginkgo biloba using 454 pyrosequencing Q. Zhou 1 *, X.X. Wang 1 *, M. Xu 1, F.L. Cao 1, F.X. Yu 2 and L.A. Xu 1 1 Co-Innovation Center
2x PCR LongNova-RED PCR Master Mix
2x PCR LongNova-RED Components RP85L 100 reactions (50 μl) RP85L-10 1000 reactions (50 μl) 2x PCR LongNova-RED 2 x 1.25 ml 20 x 1.25 ml PCR grade water 2 x 1.5 ml 20 x 1.5 ml Storage & Shiing Storage conditions
White Paper: High Throughput SNP Genotyping Using Array Tape in Place of Microplates
White Paper High Throughput SNP Genotyping White Paper: High Throughput SNP Genotyping Using Array Tape in Place of Microplates Miniaturization and Automation Using a Novel New Reaction Substrate Originally
Genetic Study of Ascochyta Blight Resistance in Chickpea and Lentil
Genetic Study of Ascochyta Blight Resistance in Chickpea and Lentil B. Tar an 1, L. Buchwaldt 2, C. Breitkreutz 1, A. Tullu 1, T. Warkentin 1, S. Banniza 1 and A. Vandenberg 1 1 Crop Development Centre,
B. Incorrect! Ligation is also a necessary step for cloning.
Genetics - Problem Drill 15: The Techniques in Molecular Genetics No. 1 of 10 1. Which of the following is not part of the normal process of cloning recombinant DNA in bacteria? (A) Restriction endonuclease
Biology 445K Winter 2007 DNA Fingerprinting
Biology 445K Winter 2007 DNA Fingerprinting For Friday 3/9 lab: in your lab notebook write out (in bullet style NOT paragraph style) the steps for BOTH the check cell DNA prep and the hair follicle DNA
Book chapter appears in:
Mass casualty identification through DNA analysis: overview, problems and pitfalls Mark W. Perlin, PhD, MD, PhD Cybergenetics, Pittsburgh, PA 29 August 2007 2007 Cybergenetics Book chapter appears in:
Chapter 1 Molecular Genetic Approaches to Maize Improvement an Introduction
Chapter 1 Molecular Genetic Approaches to Maize Improvement an Introduction Robert T. Fraley In the following chapters prominent scientists will discuss the recent genetic improvements in maize that have
Short Tandem Repeat (STR) Analysis
Maj Gen (R) Suhaib Ahmed, HI (M) Short tandem repeats (STR) are randomly distributed DNA sequences in which 2-6bp are tandemly repeated. These are scattered on all chromosomes including the autosomes as
A Lot of Cutting and Pasting Going on Here Recombinant DNA and Biotechnology
A Lot of Cutting and Pasting Going on Here Recombinant DNA and Biotechnology How Are Large DNA Molecules Analyzed? Naturally occurring enzymes that cleave and repair DNA are used in the laboratory to manipulate
Marker assisted characterization of wilt resistance in productive Chickpea genotypes
Research Article Marker assisted characterization of wilt resistance in productive Chickpea genotypes C. D. Soregaon and R. L. Ravikumar Abstract Fusarium wilt caused by Fusarium oxysporum f. sp. ciceris
Molecular mechanism of powdery mildew resistance in tobacco
2015 CORESTA Agronomy / Phytopathology Joint Meeting Molecular mechanism of powdery mildew resistance in tobacco Masao ARAI Tomoyuki TAJIMA Seiki SATO Tomoyuki KOMATSU Tomoya FUJIMURA JAPAN TOBACCO INC.
BIOTECHNOLOGY. Sticky & blunt ends. Restriction endonucleases. Gene cloning an overview. DNA isolation & restriction
BIOTECHNOLOGY RECOMBINANT DNA TECHNOLOGY Recombinant DNA technology involves sticking together bits of DNA from different sources. Made possible because DNA & the genetic code are universal. 2004 Biology
SeCore SBT Sequence Based Typing
MOLECULAR TYPING Product Brochure SeCore SBT Sequence Based Typing Key Benefits SeCore HLA typing kits combine the accuracy of bidirectional sequencing and the power and flexibility of our improved sequence
..C C C T C A T T C A T T C A T T C A T T C A..
Polymerase Chain Reaction Lab: a Forensic Application INTRODUCTION PCR (polymerase chain reaction) is a technique that scientists use to amplify particular segments of DNA. This process can produce large
Breeding rye (Secale cereale L.) for early fall-winter forage production
Breeding rye (Secale cereale L.) for early fall-winter forage production M. C. Saha, J. L. Baker, and J. H. Bouton Forage Improvement Division, The Samuel Roberts Noble Foundation, Inc., 2510 Sam Noble
4/26/2015. Cut DNA either: Cut DNA either:
Ch.20 Enzymes that cut DNA at specific sequences (restriction sites) resulting in segments of DNA (restriction fragments) Typically 4-8 bp in length & often palindromic Isolated from bacteria (Hundreds
Index. Index 377. ASH, see Allele-specific hybridization
Index 377 Index A Allele-specific hybridization (ASH), genotyping principles, 14, 15 Amplification refractory mutation system-polymerase chain reaction (ARMS-PCR), cystic fibrosis diagnosis, amplification,
HLA typing techniques
HLA typing techniques D R. S A R A A S S A D I A S L M D. P H D O F I M M U N O L O G Y A S S I S TA N T P R O F E S S O R T E H R A N U N I V E R S I T Y O F M E D I C A L S C I E N C E M O L E C U L
SEARCHING FOR DNA MARKERS ASSOCIATED WITH SCLEROTINIA TOLERANCE IN CULTIVATED SUNFLOWER
SEARCHING FOR DNA MARKERS ASSOCIATED WITH SCLEROTINIA TOLERANCE IN CULTIVATED SUNFLOWER Junfang Chen, Department of Plant Sciences, North Dakota State University, Fargo, ND 58105 E-mail: chenj@fargo.ars.usda.gov
Association Mapping in Plants PLSC 731 Plant Molecular Genetics Phil McClean April, 2010
Association Mapping in Plants PLSC 731 Plant Molecular Genetics Phil McClean April, 2010 Traditional QTL approach Uses standard bi-parental mapping populations o F2 or RI These have a limited number of