m i c r o s a t e l l i t e e v o l u t i o n i n a d l i
play

M i c r o s a t e l l i t e e v o l u t i o n - PowerPoint PPT Presentation

Sep 04, 2022 •186 likes •435 views

M i c r o s a t e l l i t e e v o l u t i o n i n A d l i e p e n g u i n s B e n n e t M c C o m i s h S c h o o l o f M a t h e m a t i c s a n d P h y s i c s M

  1. M i c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s B e n n e t M c C o m i s h S c h o o l o f M a t h e m a t i c s a n d P h y s i c s

  2. M i c r o s a t e l l i t e s T a n d e m r e p e a t s o f m o t i f s u p t o 6 b p , e . g . ( A C ) R e p e a t s c a n b e i m p e r f e c t , e . g . o n e l o c u s h a s 6 t h r e e a l l e l e s : = A C A C A C A C A C A C 1 .( A A A G ) L e n g t h i s h i g h l y p o l y m o r p h i c . 1 2 U b i q u i t o u s i n e u k a r y o t e g e n o m e s . 2 .( A A A G ) A ( A A A G ) 2 2 1 2 M o s t e v o l v e n e u t r a l l y , a n d a r e w i d e l y u s e d a s 3 .( A A A G A G A G ) ( A ) ( A G ) 6 4 3 g e n e t i c m a r k e r s i n p o p u l a t i o n g e n e t i c s , e c o l o g y . ( A A A G ) ( A G ) A A ( A G ) ( A A A G ) 3 9 3 2 S o m e a r e a l s o i n v o l v e d i n d i s e a s e i n h u m a n s a n d ( A G ) ( A A A G ) ( A G A G A A A G ) 2 2 1 5 o t h e r m a m m a l s . ( A A A G ) 2 4 T h o u g h t t o m u t a t e b y r e p l i c a t i o n s l i p p a g e . o r c o m p o u n d , e . g . ( A G G ) ( C T C ) 8 6 P o i n t m u t a t i o n m a y b e i m p o r t a n t i n t h e s e c a s e s . Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  3. M i c r o s a t e l l i t e m o d e l s I n fj n i t e a l l e l e m o d e l ( I A M ) M u t a t i o n i n v o l v e s a n y n u m b e r o f ● r e p e a t s a n d a l w a y s r e s u l t s i n a n e w a l l e l e . Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  4. M i c r o s a t e l l i t e m o d e l s I n fj n i t e a l l e l e m o d e l ( I A M ) M u t a t i o n i n v o l v e s a n y n u m b e r o f ● r e p e a t s a n d a l w a y s r e s u l t s i n a n e w a l l e l e . K - a l l e l e m o d e l ( K A M ) K p o s s i b l e a l l e l i c s t a t e s , a n y a l l e l e ● h a s c o n s t a n t p r o b a b i l i t y o f m u t a t i o n t o a n y o t h e r s t a t e . Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  5. M i c r o s a t e l l i t e m o d e l s I n fj n i t e a l l e l e m o d e l ( I A M ) S t e p w i s e m u t a t i o n m o d e l ( S M M ) M u t a t i o n i n v o l v e s a n y n u m b e r o f L o s s o r g a i n ( w i t h e q u a l ● ● r e p e a t s a n d a l w a y s r e s u l t s i n a p r o b a b i l i t y ) o f a s i n g l e r e p e a t . n e w a l l e l e . K - a l l e l e m o d e l ( K A M ) K p o s s i b l e a l l e l i c s t a t e s , a n y a l l e l e ● h a s c o n s t a n t p r o b a b i l i t y o f m u t a t i o n t o a n y o t h e r s t a t e . Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  6. M i c r o s a t e l l i t e m o d e l s I n fj n i t e a l l e l e m o d e l ( I A M ) S t e p w i s e m u t a t i o n m o d e l ( S M M ) M u t a t i o n i n v o l v e s a n y n u m b e r o f L o s s o r g a i n ( w i t h e q u a l ● ● r e p e a t s a n d a l w a y s r e s u l t s i n a p r o b a b i l i t y ) o f a s i n g l e r e p e a t . n e w a l l e l e . K - a l l e l e m o d e l ( K A M ) G e n e r a l i s e d s t e p w i s e m o d e l ( G S M ) K p o s s i b l e a l l e l i c s t a t e s , a n y a l l e l e ● E a c h m u t a t i o n a d d s o r r e m o v e s ● h a s c o n s t a n t p r o b a b i l i t y o f X r e p e a t s , w h e r e X f o l l o w s a m u t a t i o n t o a n y o t h e r s t a t e . g e o m e t r i c d i s t r i b u t i o n . Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  7. A d é l i e p e n g u i n d a t a A d é l i e p e n g u i n s b r e e d i n m u l t i p l e l o c a t i o n s a r o u n d t h e c o a s t o f A n t a r c t i c a . H a v e b e e n n e s t i n g o n e x p o s e d a r e a s o f c o a s t l i n e f o r t h o u s a n d s o f y e a r s – d e a d c h i c k s a n d g u a n o p r e s e r v e d . We h a v e h i g h - c o v e r a g e ( ~ 3 0 x ) g e n o m e s e q u e n c e r e a d s f o r 2 2 m o d e r n s a m p l e s f r o m fj v e s i t e s . A l s o l o w e r - c o v e r a g e r e a d s f o r 2 2 a n c i e n t g e n o m e s u p t o 3 0 , 0 0 0 y e a r s o l d f r o m s e v e r a l s i t e s . Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  8. Africa 4 6 Adelie Genomic Sequencing Efforts South America Scott Base / McMurdo Station Modern Samples Ancient Samples ca. 60 samples 4 1-30 KYA 4 Australia 4 Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  9. M i c r o s a t e l l i t e d e t e c t i o n R e f e r e n c e I l l u m i n a g e n o m e r e a d s Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  10. M i c r o s a t e l l i t e d e t e c t i o n R e f e r e n c e I l l u m i n a g e n o m e r e a d s T R F M i c r o s a t e l l i t e l o c i Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  11. M i c r o s a t e l l i t e d e t e c t i o n R e f e r e n c e I l l u m i n a g e n o m e r e a d s T R F B o w t i e 2 M i c r o s a t e l l i t e M a p p i n g l o c i Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  12. M i c r o s a t e l l i t e d e t e c t i o n R e f e r e n c e I l l u m i n a g e n o m e r e a d s T R F B o w t i e 2 M i c r o s a t e l l i t e M a p p i n g l o c i R e p e a t S e q G e n o t y p e s Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  13. M i c r o s a t e l l i t e d e t e c t i o n N u m b e r s o f l o c i d e t e c t e d i n A d é l i e r e f e r e n c e R e f e r e n c e I l l u m i n a g e n o m e u s i n g T a n d e m R e p e a t F i n d e r : g e n o m e r e a d s M o t i f N u m b e r o f T R F B o w t i e 2 l e n g t h l o c i 1 1 7 5 , 6 0 4 M i c r o s a t e l l i t e M a p p i n g 2 4 1 , 4 1 1 l o c i 3 6 1 , 0 1 4 4 1 0 5 , 8 6 2 R e p e a t S e q 5 2 3 2 , 3 2 5 6 5 2 9 , 4 9 2 G e n o t y p e s Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

  14. G e n o t y p e d a t a Mi c r o s a t e l l i t e e v o l u t i o n i n A d é l i e p e n g u i n s

Download Presentation
Download Policy: The content available on the website is offered to you 'AS IS' for your personal information and use only. It cannot be commercialized, licensed, or distributed on other websites without prior consent from the author. To download a presentation, simply click this link. If you encounter any difficulties during the download process, it's possible that the publisher has removed the file from their server.

Recommend

State of the art on molecular characterization in advanced prostate cancer (APC) Colin C.

State of the art on molecular characterization in advanced prostate cancer (APC) Colin C.

State of the art on molecular characterization in advanced prostate cancer (APC) Colin C. Pritchard MD, PhD University of Washington Department of Lab Medicine Brotman Baty Institute for Precision Medicine APCCC Basel Switzerland August 29,

442 views • 18 slides
1 Consider two loci and 1 generation of random mating: Random association in gametes Alleles at

1 Consider two loci and 1 generation of random mating: Random association in gametes Alleles at

Population Genetics 2: Linkage disequilibrium Consider two loci and 1 generation of random mating: A gene : AA, Aa, and aa B gene : BB, Bb, and bb Genotype frequencies in a population A gene B gene f AA = p 2 f BB = x 2 f Aa = 2pq f Bb = 2 xy f

451 views • 15 slides
[1] Defini=on of allele-specific expression (ASE) Adopted from Unneberg, 2010 One gene can

[1] Defini=on of allele-specific expression (ASE) Adopted from Unneberg, 2010 One gene can

2610//16 ASE: allele-specific expression SciLifeLab RNA-seq course Outline 1. Defini=on of ASE Allele-specific expression, ASE 2. Detec=ng ASE (introductory case) 3. Applica=ons and prevalence of ASE 4. Important ASE considera=ons Olof

282 views • 10 slides
!"#$#%&'(%)*+,%&'-*#."'/+0 ,%&'-*#.+1*)./2#*-+)'*#//+3*#-&"./++

!"#$#%&'(%)*+,%&'-*#."'/+0 ,%&'-*#.+1*)./2#*-+)'*#//+3*#-&"./++

!"#$%&'()*+ !"#$#%&'(%)*+,%&'-*#."'/+0 ,%&'-*#.+1*)./2#*-+)'*#//+3*#-&"./++ !"#$ 4#*5&'6)"+76&8&/ 9 :/*)&%+3&'6- #$"3+"3+*+ 7(22#*- ')*-##. ;

835 views • 50 slides
Detection of copy number alterations and loss of heterozygosity Control-FREEC tutorial Valentina

Detection of copy number alterations and loss of heterozygosity Control-FREEC tutorial Valentina

Complete Genome analysis: Detection of copy number alterations and loss of heterozygosity Control-FREEC tutorial Valentina BOEVA Institut Curie, INSERM, Mines ParisTech Workshop outlines Motivation for copy number detection in cancer

1.32k views • 82 slides
Familial Pulmonary Fibrosis And Role of Genetic Testing Saturday, November 3, 2018 UCSF CME

Familial Pulmonary Fibrosis And Role of Genetic Testing Saturday, November 3, 2018 UCSF CME

Genetics of Pulmonary Fibrosis: Time for Genetic Screening? Familial Pulmonary Fibrosis And Role of Genetic Testing Saturday, November 3, 2018 UCSF CME Program: ILD The Changing Landscape San Francisco Marriott Union Square Christine Kim

492 views • 31 slides
Computations with Markers Paulino Prez 1 Jos Crossa 1 1 ColPos-Mxico 2 CIMMyT-Mxico June,

Computations with Markers Paulino Prez 1 Jos Crossa 1 1 ColPos-Mxico 2 CIMMyT-Mxico June,

Computations with Markers Paulino Prez 1 Jos Crossa 1 1 ColPos-Mxico 2 CIMMyT-Mxico June, 2015. CIMMYT, Mxico-SAGPDB Computations with Markers 1/20 Contents Genomic relationship matrix 1 Examples 2 Big Data! 3 CIMMYT,

491 views • 20 slides
PhaRmacodynamic Effects of Switching thErapy in PCI patients with high on Treatment platelet

PhaRmacodynamic Effects of Switching thErapy in PCI patients with high on Treatment platelet

PhaRmacodynamic Effects of Switching thErapy in PCI patients with high on Treatment platelet reactivity and genotype variation: high Clopidogrel dose versus Prasugrel (RESET GENE Study). (ClinicalTrials.gov NCT01465828) GENNARO SARDELLA MD,

385 views • 22 slides
Introduction to PLINK Scott Hazelhurst Sydney Brenner Institute for Molecular Bioscience and

Introduction to PLINK Scott Hazelhurst Sydney Brenner Institute for Molecular Bioscience and

Introduction Introduction to PLINK Scott Hazelhurst Sydney Brenner Institute for Molecular Bioscience and School of Electrical & Information Engineering University of the Witwatersrand Johannesburg 2014 Scott Hazelhurst Sydney Brenner

958 views • 20 slides
Using RNA-Seq to reveal expression & diversity in maize

Using RNA-Seq to reveal expression & diversity in maize

Using RNA-Seq to reveal expression & diversity in maize C Robin Buell Michigan State University Department of Plant Biology Purdue 8 th InternaGonal

811 views • 35 slides
Todd A. Johnson RIKEN Center for Genomic Medicine Tokyo Medical & Dental University R User

Todd A. Johnson RIKEN Center for Genomic Medicine Tokyo Medical & Dental University R User

hzAnalyzer: Detection, quantification, and visualization of contiguous homozygosity in human populations from high-density genotyping datasets using R and Java Todd A. Johnson RIKEN Center for Genomic Medicine Tokyo Medical & Dental

464 views • 23 slides
Predic'ng 'ssue-specific effects of rare gene'c variants Farhan Damani Biological Data Sciences

Predic'ng 'ssue-specific effects of rare gene'c variants Farhan Damani Biological Data Sciences

Predic'ng 'ssue-specific effects of rare gene'c variants Farhan Damani Biological Data Sciences 2016 Goal: develop a framework to predict 'ssue- specific regulatory effects of rare variants Rare variants are abundant and poten'ally

659 views • 38 slides
management law Dr. Sndor Flp PhD, associate professor NUPS, Department of Water and

management law Dr. Sndor Flp PhD, associate professor NUPS, Department of Water and

Environmental law, water management law Dr. Sndor Flp PhD, associate professor NUPS, Department of Water and Environmental Policy 1 The system of environmental la law 1a. A (medium level) branch of law (4) note: number in bracket signs the

1.51k views • 101 slides
BATTLING THE MYTHS AND FEARS REGARDING PEDIATRIC VACCINES RC Hellinga, Pharm.D., BCPPS UNMH

BATTLING THE MYTHS AND FEARS REGARDING PEDIATRIC VACCINES RC Hellinga, Pharm.D., BCPPS UNMH

10/5/18 BATTLING THE MYTHS AND FEARS REGARDING PEDIATRIC VACCINES RC Hellinga, Pharm.D., BCPPS UNMH Pediatric ICU Pharmacist 10/8/2018 Disclosures Nothing to disclose 1 10/5/18 Pharmacist Objectives Describe 5 of the most common

883 views • 32 slides
Automating Biostatistics Workflows g for Bench Scientists Using R based Web tools Web

Automating Biostatistics Workflows g for Bench Scientists Using R based Web tools Web

Automating Biostatistics Workflows g for Bench Scientists Using R based Web tools Web tools Jeff Skinner, Vivek Gopalan, Jason Barnett and Yentram Huyen useR! 2010 Conference July 21 23, 2010 Gaithersburg, MD NIAID Mission NIAID

623 views • 23 slides
NIH Research Opportunities in Biocomputing and Bioinformatics Peter M. Lyster, Ph.D. (301) 435

NIH Research Opportunities in Biocomputing and Bioinformatics Peter M. Lyster, Ph.D. (301) 435

NIH Research Opportunities in Biocomputing and Bioinformatics Peter M. Lyster, Ph.D. (301) 435 1256 Lysterp@csr.nih.gov Center for Scientific Review National Institutes of Health The National Institutes of Health NCCAM NHLBI NICHD

471 views • 29 slides
University of Illinois at Chicago Analysis of Dashboard Indicators R E S E A R C H P E R F O R

University of Illinois at Chicago Analysis of Dashboard Indicators R E S E A R C H P E R F O R

July 23, 2015 University of Illinois at Chicago Analysis of Dashboard Indicators R E S E A R C H P E R F O R M A N C E U P D AT E S BY: U N I V E R S I T Y O F F I C E F O R P L A N N I N G A N D B U D G E T I N G J U N E 1 2 , 2 0 1

266 views • 26 slides
BIOST/STAT 578 A Statistical Methods in Infectious Diseases Lecture 16 February 26, 2009

BIOST/STAT 578 A Statistical Methods in Infectious Diseases Lecture 16 February 26, 2009

BIOST/STAT 578 A Statistical Methods in Infectious Diseases Lecture 16 February 26, 2009 Cholera: ecological determinants and vaccination Latest big epidemic in Zimbabwe Support International Vaccine Institute National Institute of

1.17k views • 83 slides
The Life Sciences, Biosecurity, and Dual Use Research Designed by: Brian Rappert Malcolm

The Life Sciences, Biosecurity, and Dual Use Research Designed by: Brian Rappert Malcolm

The Life Sciences, Biosecurity, and Dual Use Research Designed by: Brian Rappert Malcolm Dando University of Exeter Bradford University Marie Chevrier University of Texas at Dallas Project on Dual Use Research in Life

412 views • 20 slides
2 nd Year Fellows Conference March 22 25, 2012 Scottsdale, AZ Supported by an educational

2 nd Year Fellows Conference March 22 25, 2012 Scottsdale, AZ Supported by an educational

2 nd Year Fellows Conference March 22 25, 2012 Scottsdale, AZ Supported by an educational grant from Abbott Nutrition Learning objectives: To improve clinical competence and performance through: 1. Sessions on academic skills and

2.26k views • 181 slides
Skin and Soft Tissue Infections Henry F. Chambers, MD Professor of Medicine, UCSF Disclosures

Skin and Soft Tissue Infections Henry F. Chambers, MD Professor of Medicine, UCSF Disclosures

2/14/16 Skin and Soft Tissue Infections Henry F. Chambers, MD Professor of Medicine, UCSF Disclosures AstraZeneca advisory board Cubist/Merck research grant Genentech advisory board Merck stock Theravance

639 views • 25 slides
Development of the model of in silico design of AMP sequences active agains Staphylococcus aureus

Development of the model of in silico design of AMP sequences active agains Staphylococcus aureus

Development of the model of in silico design of AMP sequences active agains Staphylococcus aureus 25923 Boris Vishnepolsky 1, *, George Zaalishvili 2 , Margarita Karapetian 2 , Andrei Gabrielian 3 , Alex Rosenthal 3 , Darrell E. Hurt 3 , Michael

535 views • 22 slides
Developing the NIH-wide Strategic Plan Joint Meeting of the National Center for Advancing

Developing the NIH-wide Strategic Plan Joint Meeting of the National Center for Advancing

Developing the NIH-wide Strategic Plan Joint Meeting of the National Center for Advancing Translational Sciences Advisory Council and Cures Acceleration Network Review Board September 3, 2015 Lawrence A. Tabak, DDS, PhD Principal Deputy

572 views • 29 slides
Douglas F. Nixon, MD, PhD Chair, Dept. of Microbiology, Immunology & Tropical Medicine, The

Douglas F. Nixon, MD, PhD Chair, Dept. of Microbiology, Immunology & Tropical Medicine, The

How Close are w e to a Cure? Douglas F. Nixon, MD, PhD Chair, Dept. of Microbiology, Immunology & Tropical Medicine, The George Washington University, Washington DC, USA October 25 th 2016 OHTN- Thank you! OHTN and NIH Thank you!

556 views • 28 slides

More recommend