The Genome 10K Project: An Overview of Now and Beyond
|
|
|
- Bennett McGee
- 5 years ago
- Views:
Transcription
1 The Genome 10K Project: An Overview of Now and Beyond Klaus-Peter Koepfli, Ph.D. Laboratory of Genomic Diversity Frederick National Laboratory for Cancer Research Frederick, MD USA
2 10,000 Vertebrate Genome Project
3
4 Number of Species Fishes 50.6% Birds 15.6% Amphibians 10.6% Non-avian Reptiles 14.5% Mammals 8.7%
5 Examples of Selected Species Horned marsupial frog Tuatara Monito del Monte Ocean sunfish Great white shark
6 Selecting a species: Phylogenetic diversity A selected species captures the phylogenetic depth of a groups evolutionary radiation maximizing phylogenetic representation across vertebrate evolutionary lineages.
7 The most diverse group of vertebrates Modified from Meyer, 2005
8 FISHES (BGI+G10K+Public) Tetraodontiformes Pleuronectiformes Stromateiformes Scorpaeniformes Scombriformes Perciformes Gasterosteiformes Synbranchiformes Beloniformes Cyprinodontiformes Beryciformes Gadiformes Myctophiformes Salmoniformes Siluriformes Characiformes Cypriniformes WGD Clupeiformes Osteoglossiformes Anguilliformes Lepisosteidae Amiidae Acipenseriformes Polypteriformes Lobe-fin fishes Cartilaginous fishes Jawless vertebrates
9 AMPHIBIANS ~270 Myr
10 Birds Alligatoridae Crocodylidae Gavilialidae Chelydridae Testudinidae Geoemydidae Dermochelyidae Chelonidae Podocnemididae Pelomedusidae Chelidae Kinosternidae Dermatoemydidae Emydidae Carettochelyidae Trionychidae Sphenodontidae Dibambidae Gekkonidae Phyllodactylidae Sphaerodactylidae Eublepharidae Pygopodidae Carphodactylidae Diplodactylidae Cordylidae Gerrhosauridae Xantusiidae Scincidae Amphisbaenidae Trogonophiidae Bipedidae Cadeidae Blanidae Rhineuridae Lacertidae Teiidae Gymnophthalmidae Chamaeleonidae Agamidae Anieliidae Diploglossidae Anguidae Helodermatidae Xenosauridae Lanthanotidae Varanidae Typhlopidae Uropeltidae Cylindrophiidae Anomochiidae Xenopeltidae Pythonidae Loxocemidae Acrochordidae Xenodermatidae Pareatidae Boidae Homalopsidae Viperidae ELAPOIDEA COLUBROIDEA Pyron et al., 2010 BGI G10K Other institutions Iguanidae (x8) Leptotyphlopidae Anomaliepididae NON-AVIAN REPTILES
11 Paleognathae After Hackett et al. 2008, Science 320: 1763
12 After Hackett et al. 2008, Science 320: 1763 Paleognathae Galloanserae
13 Paleognathae Galloanserae Neoaves After Hackett et al. 2008, Science 320: 1763
14 MAMMALS Public Broad/G10K BGI/G10K Done Ongoing Proposed Done Ongoing TOTAL
15 Selecting a species: Scientific community The selected species enjoys a biological community with established biological applications for science, comparative medicine, or biology or society.
16 Selecting a species: Scientific context For the selected species there exists an explicit scientific value in studying the species historically and for the future.
17 Amphibians proposed by G10K Archey s frog: Leiopelma archeyi Scientific motivation: Represents sister lineage to all other frogs. Direct development, independently derived. Critically endangered. Tissue status: To be sent directly to BGI, awaiting permit. Genome size: ~7.8 Gb Sex chromos.: ZW? OW? IUCN status: CR Distribution: New Zealand Family: Leiopelmatidae Overview
18 Selecting a species: interesting biological questions Extreme or unusual adaptations: biochemical, physiological, morphological Phenotypic diversity, convergences, parallelisms Sex determining systems, sexual dimorphism
19 Selecting a species: Popular recognition The species enjoys a popular image, recognition and utility, such as domesticated species, conservation icons, national animals, and wildlife icons.
20 Procuring an appropriate sample Vouchered specimen or live animal Voucher ID Gender Geographic origin Preservation method Sample type Sample quality DNA quality
21 The Frozen Zoo Mission of the Frozen Zoo To help preserve the legacy of life on Earth for future generations by establishing and maintaining genetic resources in support of worldwide efforts in research and conservation.
22 Ideal Sample has: DNA barcode (released immediately, prior to genomic sequencing). Vouchered specimen Cell lines for DNA Cell lines for RNA (less preferred: field source of mrna) Access to fresh material Repository of more DNA from same individual Repository of DNAs from multiple individuals of same species (for SNP discovery) Large amounts of DNA, 700 μg 1.0 mg! Complete permit trail Heterogametic sex when identified (Bank both sexes) Possibility of sorting the sex chromosome(s) Possibility of physical mapping onto chromosomes? FiSH? Possibility of obtaining trios
23 Genome Sequencing Strategies: BGI FROM: ct.jsp
24 Timetable and Tracking Quarterly update from centers - simple format with automated updates of accumulated coverage Sample tracking/delivery Near real time project management in centralized location (e.g. BGI) Updates available to sample donors Data must be available in public repository for someone to get credit Use Fort Lauderdale rules for submission times Assembled data in a reasonable amount of time given achieving particular standards. Some kind of group marker paper - with ongoing updates Within 6-9 months of assembly of species- have jamboree for white paper etc. Barcode release immediately - can also be given a DOI DOI assignment of data - can set an embargo: only 1 year sequence traces from WGS projects are to be deposited in a trace archive within one week of production. Assemblies are to be deposited in a database as soon as possible after the assembled sequence has met a set of quality evaluation criteria. The deposited data should be available for all to use without restriction.
25 Assembly and Annotation: Challenges and Solutions Earl et al Genome Research Salzberg et al Genome Research
26 Data Access and Analysis Alignathon
27 Data Access and Release BGI-BOX Cloud Computing Solution
28 BGI-G10K G10K Carnivoran Genomes: Genomic Ambitions Phylogenomics Comparative Genomics Population Genomics Physiological/Adaptation Genomics
29 The First Carnivoran Genomes Dog (Canis( familiaris) 2003, 2005 Cat (Felis( catus) 2007 Giant Panda (Ailuropuda melanoleuca)
30 The Next Carnivoran Genomes: The BGI-G10K G10K species -Polar bear (Ursus( maritimus) -Cheetah (Acinonyx( jubatus) -Lion (Panthera( leo) -Red fox (Vulpes( vulpes) -Red panda (Ailurus( fulgens) -Spotted hyena (Crocuta( crocuta)
31 The Next Carnivoran Genomes: Other research groups -Domestic ferret (Mustela( putorius furo) -Wolverine (Gulo( gulo) -Weddell seal (Leptonychotes( wedellii) -Tiger (Panthera( tigris) -Iberian lynx (Lynx( pardinus) -Snow leopard (Panthera( uncia) -Small Indian mongoose (Herpestes( javanicus)
32 117 taxa 17,411 bp ML tree (PhyML) The Carnivora Tree of Life ~250 species expected, 24 loci (~22,000 bp) Koepfli et al. unpublished data
33 The power of genomes: Identifying NEW markers effeciently 1147 primer pairs: Housley et al. 2006, BMC Genomics Genome assemblies of cat, dog, and giant panda Electronic PCR (epcr( PCR) pcr/ + primer selection criteria 140 primer pairs selected Order 50 primer pairs for testing
34 Insertions: INDELs in PFKFb1 intron as markers of carnivore phylogeny Deletions:
35 Carnivore phylogeny based on PFKFB1 intron
36 Other Phylogenomic Markers Insertions and deletions Intron gain and loss Retroposon integrations Signature sequences Gene duplications Genomic rearrangements Microinversions Ultra-conserved elements
37 Comparative Genomics: Genome Architecture Homologous synteny blocks (HSBs) of the cat genome as compared to corresponding syntenic blocks in five mammalian species: (Cfa) Canis familiaris, (Hsa) Homo sapiens, (Ptr) Pan troglodytes, (Mmu) Mus musculus, and (Rno) Rattus norvegicus. Pontius et al. Genome Res. 2007
38 Comparative Genomics: Genome Architecture Dog Cat Pontius et al. Genome Res Giant Panda Li et al. Nature 2009
39 Population Genomics O Brien et al. PNAS 1987 Antunes et al. PLoS Genet. 2007
40 Selective Sweep Mapping
41 The short legs gene: association mapping Retrogene-fibroblast growth factor 4 (FGF4) FGF 4 Adults Juveniles Parker et al. Science, 2009
42 Physiological/Adaptation Genomics: Olfactory Receptor (OR) Genes! Hayden et al. Genome Res. 2010
43 Physiological/Adaptation Genomics: Hibernation (denning( denning) ) in bears Decrease in metabolism 75% Body temperature is maintained No loss in bone mass or density No loss of muscle mass - Inhibition of the ubiquitin-proteasome system
44 The Genomic Future of Carnivora: many possible avenues for study Northern elephant seal: diving physiology Sea otter: osmoregulatory physiology Skunks: chemical ecology
45 Thank You! Genome 10K Steve O BrienO Warren Johnson Oliver Ryder David Haussler G10KCOS BGI Guojie Zhang Yingrui Li Jun Wang BGI team
Rock-Paper-Scissors, Viviparity, and Speciation: Links Between Climate Warming and Lizard Extinctions. Outline
Rock-Paper-Scissors, Viviparity, and Speciation: Links Between Climate Warming and Lizard Extinctions Jack W. Sites, Jr. Dept. of Biology/Bean Life Science Museum Brigham Young University Provo, UT Outline
Supporting Information
Supporting Information Table S1. Sources of the historic range maps used in our analysis. Elevation limits (lower and upper) are in meters. Modifications to the source maps are listed in the footnotes.
Modern Evolutionary Classification. Lesson Overview. Lesson Overview Modern Evolutionary Classification
Lesson Overview 18.2 Modern Evolutionary Classification THINK ABOUT IT Darwin s ideas about a tree of life suggested a new way to classify organisms not just based on similarities and differences, but
Species: Panthera pardus Genus: Panthera Family: Felidae Order: Carnivora Class: Mammalia Phylum: Chordata
CHAPTER 6: PHYLOGENY AND THE TREE OF LIFE AP Biology 3 PHYLOGENY AND SYSTEMATICS Phylogeny - evolutionary history of a species or group of related species Systematics - analytical approach to understanding
Supplementary Materials for
www.sciencemag.org/content/343/6167/1241484/suppl/dc1 Supplementary Materials for Status and Ecological Effects of the World s Largest Carnivores William J. Ripple,* James A. Estes, Robert L. Beschta,
Bi156 Lecture 1/13/12. Dog Genetics
Bi156 Lecture 1/13/12 Dog Genetics The radiation of the family Canidae occurred about 100 million years ago. Dogs are most closely related to wolves, from which they diverged through domestication about
CLADISTICS Student Packet SUMMARY Phylogeny Phylogenetic trees/cladograms
CLADISTICS Student Packet SUMMARY PHYLOGENETIC TREES AND CLADOGRAMS ARE MODELS OF EVOLUTIONARY HISTORY THAT CAN BE TESTED Phylogeny is the history of descent of organisms from their common ancestor. Phylogenetic
UNIT III A. Descent with Modification(Ch19) B. Phylogeny (Ch20) C. Evolution of Populations (Ch21) D. Origin of Species or Speciation (Ch22)
UNIT III A. Descent with Modification(Ch9) B. Phylogeny (Ch2) C. Evolution of Populations (Ch2) D. Origin of Species or Speciation (Ch22) Classification in broad term simply means putting things in classes
TABLE 1: NUMBER OF ANIMALS USED IN RELATION TO THEIR PLACE OF ORIGIN
XI/810/04rev3 TABLE 1: NUMBER OF ANIMALS USED IN RELATION TO THEIR PLACE OF ORIGIN Origin versus species 1.1 1.a. Mice (Mus musculus) 1.b. Rats (Rattus norvegicus) 1.c. Guinea-Pigs (Cavia porcellus) 1.d.
European Convention for the Protection of Vertebrate Animals used for Experimental and Other Scientific Purposes *
European Treaty Series - No. 123 European Convention for the Protection of Vertebrate Animals used for Experimental and Other Scientific Purposes * Strasbourg, 18.III.1986 Appendix B Statistical tables
Lecture 11 Wednesday, September 19, 2012
Lecture 11 Wednesday, September 19, 2012 Phylogenetic tree (phylogeny) Darwin and classification: In the Origin, Darwin said that descent from a common ancestral species could explain why the Linnaean
8/19/2013. What is convergence? Topic 11: Convergence. What is convergence? What is convergence? What is convergence? What is convergence?
Topic 11: Convergence What are the classic herp examples? Have they been formally studied? Emerald Tree Boas and Green Tree Pythons show a remarkable level of convergence Photos KP Bergmann, Philadelphia
110th CONGRESS 1st Session H. R. 1464
HR 1464 IH 110th CONGRESS 1st Session H. R. 1464 To assist in the conservation of rare felids and rare canids by supporting and providing financial resources for the conservation programs of nations within
AP Lab Three: Comparing DNA Sequences to Understand Evolutionary Relationships with BLAST
AP Biology Name AP Lab Three: Comparing DNA Sequences to Understand Evolutionary Relationships with BLAST In the 1990 s when scientists began to compile a list of genes and DNA sequences in the human genome
EOQ 3 Exam Review. Genetics: 1. What is a phenotype? 2. What is a genotype?
EOQ 3 Exam Review Genetics: 1. What is a phenotype? 2. What is a genotype? 3. The allele for freckles (f) is recessive to not having freckles (F). Both parents have freckles but only 3 of their 4 children
Classification and Taxonomy
NAME: DATE: PERIOD: Taxonomy: the science of classifying organisms Classification and Taxonomy Common names of organisms: Spider monkey Clown fish Mud puppy Black bear Ringworm Sea horse Sea monkey Firefly
T. 6. THE VERTEBRATES
T. 6. THE VERTEBRATES 1.- Relate the following concepts to their definition. Later, relate each concept to one of the pictures you are going to see. 1.- FIN a.- mammals with their babies 2.- GILLS b.-
Three tiers of genome evolution in reptiles
494 Three tiers of genome evolution in reptiles Chris L. Organ, 1 Ricardo Godínez Moreno and Scott V. Edwards Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University,
Lab VII. Tuatara, Lizards, and Amphisbaenids
Lab VII Tuatara, Lizards, and Amphisbaenids Project Reminder Don t forget about your project! Written Proposals due and Presentations are given on 4/21!! Abby and Sarah will read over your written proposal
Introduction to the Cheetah
Lesson Plan 1 Introduction to the Cheetah CRITICAL OUTCOMES CO #1: Identify and solve problems and make decisions using critical and creative thinking. CO #2: Work effectively with others as members of
Exceptions: Somebody liked snakes. Some people disliked dogs, geese, sharks
Unit 1: ANIMALS Exceptions: Somebody liked snakes Some people disliked dogs, geese, sharks Both animals are fascinating & worthy of our interest ANIMAL NAMES Taxonomy is a branch of biology that categorizes
Evidence for Evolution by Natural Selection. Hunting for evolution clues Elementary, my dear, Darwin!
Evidence for Evolution by Natural Selection Hunting for evolution clues Elementary, my dear, Darwin! 2006-2007 Evidence supporting evolution Fossil record shows change over time Anatomical record comparing
Biodiversity and Extinction. Lecture 9
Biodiversity and Extinction Lecture 9 This lecture will help you understand: The scope of Earth s biodiversity Levels and patterns of biodiversity Mass extinction vs background extinction Attributes of
Interpreting Evolutionary Trees Honors Integrated Science 4 Name Per.
Interpreting Evolutionary Trees Honors Integrated Science 4 Name Per. Introduction Imagine a single diagram representing the evolutionary relationships between everything that has ever lived. If life evolved
Fig Phylogeny & Systematics
Fig. 26- Phylogeny & Systematics Tree of Life phylogenetic relationship for 3 clades (http://evolution.berkeley.edu Fig. 26-2 Phylogenetic tree Figure 26.3 Taxonomy Taxon Carolus Linnaeus Species: Panthera
COMPARING DNA SEQUENCES TO UNDERSTAND EVOLUTIONARY RELATIONSHIPS WITH BLAST
Big Idea 1 Evolution INVESTIGATION 3 COMPARING DNA SEQUENCES TO UNDERSTAND EVOLUTIONARY RELATIONSHIPS WITH BLAST How can bioinformatics be used as a tool to determine evolutionary relationships and to
Animal Instincts. Modified from a lesson found at
Animal Instincts Modified from a lesson found at Materials Paper for writing and drawing assembled into a log Reference materials for researching animals Dice Procedure 1. The first task for your group
ì<(sk$m)=bdibci< +^-Ä-U-Ä-U
Genre Comprehension Skill Text Features Science Content Nonfiction Sequence Labels Diagram Glossary Animals Scott Foresman Science 3.2 ì
18 August Puerto Rican Crested Toad Dustin Smith, North Carolina Zoological Park
18 www.aza.org August 2015 Puerto Rican Crested Toad Dustin Smith, North Carolina Zoological Park MANAGING SSP POPULATIONS WITH MOLECULAR GENETICS BY ALINA TUGEND Are they one species? Are they two? How
Spot the Difference: Using the domestic cat as a model for the nutritional management of captive cheetahs. Katherine M. Bell
Spot the Difference: Using the domestic cat as a model for the nutritional management of captive cheetahs Katherine M. Bell Edited by Lucy A. Tucker and David G. Thomas Illustrated by Justine Woosnam and
GY 112: Earth History. Fossils 3: Taxonomy
UNIVERSITY OF SOUTH ALABAMA GY 112: Earth History Fossils 3: Taxonomy Instructor: Dr. Douglas W. Haywick Today s Agenda 1) Linne (the Linnaean System) 2) Taxonomy ordering 3) Some examples (important beasties
What is the evidence for evolution?
What is the evidence for evolution? 1. Geographic Distribution 2. Fossil Evidence & Transitional Species 3. Comparative Anatomy 1. Homologous Structures 2. Analogous Structures 3. Vestigial Structures
PROGRESS REPORT Report date Principle Researcher Affiliated organization Project Title Project theme Title
PROGRESS REPORT Report date: January 2019 Principle Researcher: Prajwol Manandhar Affiliated organization: Center for Molecular Dynamics Nepal (CMDN) Project Title: Developing cost-effective molecular
1 This question is about the evolution, genetics, behaviour and physiology of cats.
1 This question is about the evolution, genetics, behaviour and physiology of cats. Fig. 1.1 (on the insert) shows a Scottish wildcat, Felis sylvestris. Modern domestic cats evolved from a wild ancestor
SIO 133 Marine Mammal Biology. John Hildebrand Scripps Institution of Oceanography April 13, 2018 Biogeography, Sea Otters, Polar Bears
SIO 133 Marine Mammal Biology John Hildebrand Scripps Institution of Oceanography April 13, 2018 Biogeography, Sea Otters, Polar Bears Marine Mammal Science Emerged as a discipline in last 20-30 years
KS3 Adaptation. KS3 Adaptation. Adaptation dominoes Trail
KS3 Adaptation KS3 Adaptation Adaptation dominoes Trail Adaptation Trail The Adaptation Trail is a journey of discovery through Marwell which allows students to develop and apply their knowledge and understanding
Addressing the Wallacean Shortfall for small vertebrates in the Western Ghats across space
Addressing the Wallacean Shortfall for small vertebrates in the Western Ghats across space S.P.Vijayakumar Centre for Ecological Sciences, Indian Institute of Science (IISc), Bangalore Why this project?
Turtles (Testudines) Abstract
Turtles (Testudines) H. Bradley Shaffer Department of Evolution and Ecology, University of California, Davis, CA 95616, USA (hbshaffer@ucdavis.edu) Abstract Living turtles and tortoises consist of two
Ch 1.2 Determining How Species Are Related.notebook February 06, 2018
Name 3 "Big Ideas" from our last notebook lecture: * * * 1 WDYR? Of the following organisms, which is the closest relative of the "Snowy Owl" (Bubo scandiacus)? a) barn owl (Tyto alba) b) saw whet owl
Who Cares? The Evolution of Parental Care in Squamate Reptiles. Ben Halliwell Geoffrey While, Tobias Uller
Who Cares? The Evolution of Parental Care in Squamate Reptiles Ben Halliwell Geoffrey While, Tobias Uller 1 Parental Care any instance of parental investment that increases the fitness of offspring 2 Parental
What is taxonomy? Taxonomy is the grouping and naming of organisms. Biologists who study this are called taxonomists
Taxonomy What is taxonomy? Taxonomy is the grouping and naming of organisms Biologists who study this are called taxonomists How did it start? People wanted to organize their world so they began grouping,
Vertebrates. skull ribs vertebral column
Vertebrates skull ribs vertebral column endoskeleton in cells working together tissues tissues working together organs working together organs systems Blood carries oxygen to the cells carries nutrients
2013 Holiday Lectures on Science Medicine in the Genomic Era
INTRODUCTION Figure 1. Tasha. Scientists sequenced the first canine genome using DNA from a boxer named Tasha. Meet Tasha, a boxer dog (Figure 1). In 2005, scientists obtained the first complete dog genome
Museum of Zoology Department Vision Message Objectives
Museum of Zoology Department The museum of Zoology department was established in Shawwal 1390 H (1970) with a few samples of birds and some young mammals. The number of specimens in the museum increased
You have 254 Neanderthal variants.
1 of 5 1/3/2018 1:21 PM Joseph Roberts Neanderthal Ancestry Neanderthal Ancestry Neanderthals were ancient humans who interbred with modern humans before becoming extinct 40,000 years ago. This report
Manhattan and quantile-quantile plots (with inflation factors, λ) for across-breed disease phenotypes A) CCLD B)
Supplementary Figure 1: Non-significant disease GWAS results. Manhattan and quantile-quantile plots (with inflation factors, λ) for across-breed disease phenotypes A) CCLD B) lymphoma C) PSVA D) MCT E)
Mammal Identification In Ontario. Niagara College Fauna Identification Course # ENVR9259
Mammal Identification In Ontario Niagara College Fauna Identification Course # ENVR9259 About Mammals Mammals evolved from reptiles 200,000,000 years ago. Their rise and subsequent proliferation coincided
First named as a separate species of rodent in 1946, Tokudaia muenninki, also known as
First named as a separate species of rodent in 1946, Tokudaia muenninki, also known as Muennink s spiny rat or the Okinawa spiny rat, lives in the northern region of Yanbaru Forest on Okinawa Island, Japan.
Animal. ì<(sk$m)=bdhhdc< +^-Ä-U-Ä-U. Groups. Life Science. by Carol Levine. Scott Foresman Science 2.2
Life Science Animal Groups by Carol Levine Genre Comprehension Skill Text Features Science Content Nonfiction Alike and Different Call Outs Glossary Vertebrates and Invertebrates Scott Foresman Science
Comparing DNA Sequences Cladogram Practice
Name Period Assignment # See lecture questions 75, 122-123, 127, 137 Comparing DNA Sequences Cladogram Practice BACKGROUND Between 1990 2003, scientists working on an international research project known
Chapter 10 ANIMALS. ARTICLE I Dogs License required; fees Rabies vaccination required. GENERAL REFERENCES
Chapter 10 ANIMALS [HISTORY: Adopted by the Town Board of the Town of Scott at time of adoption of Code (see Ch. 1, General Provisions, Art. II). Amendments noted where applicable.] Animal waste See Ch.
CHAPTER 26. Animal Evolution The Vertebrates
CHAPTER 26 Animal Evolution The Vertebrates Impacts, Issues: Interpreting and Misinterpreting the Past No one was around to witness the transitions in the history of life Fossils allow us glimpses into
Lab 8 Order Carnivora: Families Canidae, Felidae, and Ursidae Need to know Terms: carnassials, digitigrade, reproductive suppression, Jacobson s organ
Lab 8 Order Carnivora: Families Canidae, Felidae, and Ursidae Need to know Terms: carnassials, digitigrade, reproductive suppression, Jacobson s organ Family Canidae Canis latrans ID based on skull, photos,
Introduction to the Cheetah
Lesson Plan 1 Introduction to the Cheetah CRITICAL OUTCOMES CO #1: Identify and solve problems and make decisions using critical and creative thinking. CO #2: Work effectively with others as members of
Creature Features SCAVENGER HUNT. Animals come in a remarkable variety of shapes, sizes, and colors. Find an animal at the Zoo that: Is red
SCAVENGER HUNT Creature Features Animals come in a remarkable variety of shapes, sizes, and colors. Find an animal at the Zoo that: Is red Has whiskers Is green Is covered in fur Is blue Has no fur at
Jerry and I am a NGS addict
Introduction Identification and Management of Loss of Function Alleles Impacting Fertility L1 Dominette 01449 Jerry and I am a NGS addict Jerry Taylor taylorjerr@missouri.edu University of Missouri 2014
Resources. Visual Concepts. Chapter Presentation. Copyright by Holt, Rinehart and Winston. All rights reserved.
Chapter Presentation Visual Concepts Transparencies Standardized Test Prep Introduction to Vertebrates Table of Contents Section 1 Vertebrates in the Sea and on Land Section 2 Terrestrial Vertebrates Section
NORTHEAST INDIANA S REPTILES AND AMPHIBIANS
NORTHEAST INDIANA S REPTILES AND AMPHIBIANS Bruce Kingsbury Indiana Purdue University Fort Wayne BruceAKingsbury.org 1 http://inherpatlas.org 2 3 http://erc.ipfw.edu 4 What are Herps? Herp is short for
Conservation genomics of the highly endangered Red Siskin
Conservation genomics of the highly endangered Red Siskin Haw Chuan Lim Dept of Vertebrate Zoology & Center for Conservation Genomics Smithsonian Institution Brian Coyle Project Coordinator, Red Siskin
Learning Goals: 1. I can list the traditional classification hierarchy in order.
Learning Goals: 1. I can list the traditional classification hierarchy in order. 2. I can explain what binomial nomenclature is, and where an organism gets its first and last name. 3. I can read and create
Name Class Date. After you read this section, you should be able to answer these questions:
CHAPTER 14 2 The Animal Kingdom SECTION Introduction to Animals BEFORE YOU READ After you read this section, you should be able to answer these questions: What is diversity? What are vertebrates? What
Testing Phylogenetic Hypotheses with Molecular Data 1
Testing Phylogenetic Hypotheses with Molecular Data 1 How does an evolutionary biologist quantify the timing and pathways for diversification (speciation)? If we observe diversification today, the processes
A final programmatic report to: SAVE THE TIGER FUND. Scent Dog Monitoring of Amur Tigers-V ( ) March 1, March 1, 2006
1 A final programmatic report to: SAVE THE TIGER FUND Scent Dog Monitoring of Amur Tigers-V (2005-0013-017) March 1, 2005 - March 1, 2006 Linda Kerley and Galina Salkina PROJECT SUMMARY We used scent-matching
Question Set 1: Animal EVOLUTIONARY BIODIVERSITY
Biology 162 LAB EXAM 2, AM Version Thursday 24 April 2003 page 1 Question Set 1: Animal EVOLUTIONARY BIODIVERSITY (a). We have mentioned several times in class that the concepts of Developed and Evolved
INQUIRY & INVESTIGATION
INQUIRY & INVESTIGTION Phylogenies & Tree-Thinking D VID. UM SUSN OFFNER character a trait or feature that varies among a set of taxa (e.g., hair color) character-state a variant of a character that occurs
1 Describe the anatomy and function of the turtle shell. 2 Describe respiration in turtles. How does the shell affect respiration?
GVZ 2017 Practice Questions Set 1 Test 3 1 Describe the anatomy and function of the turtle shell. 2 Describe respiration in turtles. How does the shell affect respiration? 3 According to the most recent
Phylogeny of Animalia (overview)
The Diversity of Animals 2 Chapter 23 Phylogeny of Animalia (overview) Key features of Chordates Phylum Chordata (the Chordates) includes both invertebrates and vertebrates that share (at some point in
DISCUSSION RESULTS 2 D. O. MESQUITA ET AL.
2 D. O. MESQUITA ET AL. et al. 2013; Penone et al. 2014; Swenson 2014), we included phylogenetic information in the form of phylogenetic eigenvectors in the multiple imputation process. We calculated phylogenetic
Clarifications to the genetic differentiation of German Shepherds
Clarifications to the genetic differentiation of German Shepherds Our short research report on the genetic differentiation of different breeding lines in German Shepherds has stimulated a lot interest
Re: Proposed Revision To the Nonessential Experimental Population of the Mexican Wolf
December 16, 2013 Public Comments Processing Attn: FWS HQ ES 2013 0073 and FWS R2 ES 2013 0056 Division of Policy and Directive Management United States Fish and Wildlife Service 4401 N. Fairfax Drive
An Ancient Reptile by Guy Belleranti
What are their homes like? Tuatara live in underground burrows. Usually they don't dig their burrows, but instead live in burrows made by nesting sea birds. The two might even live in the burrow at the
History of Lineages. Chapter 11. Jamie Oaks 1. April 11, Kincaid Hall 524. c 2007 Boris Kulikov boris-kulikov.blogspot.
History of Lineages Chapter 11 Jamie Oaks 1 1 Kincaid Hall 524 joaks1@gmail.com April 11, 2014 c 2007 Boris Kulikov boris-kulikov.blogspot.com History of Lineages J. Oaks, University of Washington 1/46
THE MARYLAND AMPHIBIAN & REPTILE ATLAS A VOLUNTEER-BASED DISTRIBUTIONAL SURVEY. Maryland Amphibian & Reptile Atlas
THE MARYLAND AMPHIBIAN & REPTILE ATLAS A VOLUNTEER-BASED DISTRIBUTIONAL SURVEY Maryland Amphibian & Reptile Atlas GLOBAL DECLINE OF AMPHIBIANS & REPTILES Amphibians 30% Salamanders 49% Frogs 29% Reptiles
Supplementary Fig.1. Complete phylogeny used in this article. The tree topology and
1 Supplementary Fig.1. Complete phylogeny used in this article. The tree topology and branch lengths for living species were taken from the recent and most complete specieslevel supertree of Nyakatura
Characteristics of Tetrapods
Marine Tetrapods Characteristics of Tetrapods Tetrapod = four-footed Reptiles, Birds, & Mammals No marine species of amphibian Air-breathing lungs Class Reptilia Saltwater Crocodiles, Sea turtles, sea
First printing: July 2016
First printing: July 2016 Copyright 2016 by Answers in Genesis. All rights reserved. No part of this book may be used or reproduced in any manner whatsoever without written permission of the publisher,
Wild Fur Identification. an identification aid for Lynx species fur
Wild Fur Identification an identification aid for Lynx species fur Wild Fur Identifica- -an identification and classification aid for Lynx species fur pelts. Purpose: There are four species of Lynx including
The melanocortin 1 receptor (mc1r) is a gene that has been implicated in the wide
Introduction The melanocortin 1 receptor (mc1r) is a gene that has been implicated in the wide variety of colors that exist in nature. It is responsible for hair and skin color in humans and the various
Animal Evolution The Chordates. Chapter 26 Part 2
Animal Evolution The Chordates Chapter 26 Part 2 26.10 Birds The Feathered Ones Birds are the only animals with feathers Descendants of flying dinosaurs in which scales became modified as feathers Long
CHAPTER 9 JACOVEC CAVERN CARNIVORES AND OTHER FAUNA. The Order Carnivora is represented by five families- Viverridae, Herpestidae,
CHAPTER 9 JACOVEC CAVERN CARNIVORES AND OTHER FAUNA 9.a. Taxonomy Carnivores The Order Carnivora is represented by five families- Viverridae, Herpestidae, Canidae, Felidae, and Hyaenidae. The Viverridae
Bio 1B Lecture Outline (please print and bring along) Fall, 2006
Bio 1B Lecture Outline (please print and bring along) Fall, 2006 B.D. Mishler, Dept. of Integrative Biology 2-6810, bmishler@berkeley.edu Evolution lecture #4 -- Phylogenetic Analysis (Cladistics) -- Oct.
Pangolins: 13 facts about the world's most hunted animal by Guy Kelley
Pangolins: 13 facts about the world's most hunted animal by Guy Kelley The prehistoric pangolin, which walks on its hind legs due to the length and curvature of its impressive claws. CREDIT: JUDY HURD
Cumbria Biodiversity Data Centre Cumbria Mammal Group
Cumbria Biodiversity Data Centre Cumbria Mammal Group Cumbria Mammal Atlas Cumbria Biodiversity Data Centre and Cumbria Mammal Group November 17 Copyright Notice Maps are copyright Cumbria Biodiversity
Prof. Neil. J.L. Heideman
Prof. Neil. J.L. Heideman Position Office Mailing address E-mail : Vice-dean (Professor of Zoology) : No. 10, Biology Building : P.O. Box 339 (Internal Box 44), Bloemfontein 9300, South Africa : heidemannj.sci@mail.uovs.ac.za
May 10, SWBAT analyze and evaluate the scientific evidence provided by the fossil record.
May 10, 2017 Aims: SWBAT analyze and evaluate the scientific evidence provided by the fossil record. Agenda 1. Do Now 2. Class Notes 3. Guided Practice 4. Independent Practice 5. Practicing our AIMS: E.3-Examining
Title: Phylogenetic Methods and Vertebrate Phylogeny
Title: Phylogenetic Methods and Vertebrate Phylogeny Central Question: How can evolutionary relationships be determined objectively? Sub-questions: 1. What affect does the selection of the outgroup have
Comparative Zoology Portfolio Project Assignment
Comparative Zoology Portfolio Project Assignment Using your knowledge from the in class activities, your notes, you Integrated Science text, or the internet, you will look at the major trends in the evolution
Animal Diversity wrap-up Lecture 9 Winter 2014
Animal Diversity wrap-up Lecture 9 Winter 2014 1 Animal phylogeny based on morphology & development Fig. 32.10 2 Animal phylogeny based on molecular data Fig. 32.11 New Clades 3 Lophotrochozoa Lophophore:
DIVISION 056 IMPORTATION, POSSESSION, CONFINEMENT, TRANSPORTATION AND SALE OF NONNATIVE WILDLIFE
DIVISION 056 IMPORTATION, POSSESSION, CONFINEMENT, TRANSPORTATION AND SALE OF NONNATIVE WILDLIFE 635 056 0010 Definitions For the purposes of these rules, the definitions in ORS 496.004 and OAR 635 045
Friday 15 June 2012 Morning
Friday 15 June 2012 Morning A2 GCE BIOLOGY F215 Control, Genomes and Environment *F210410611* Candidates answer on the Question Paper. OCR supplied materials: Insert (inserted) Other materials required:
Your web browser (Safari 7) is out of date. For more security, comfort and the best experience on this site: Update your browser Ignore
Your web browser (Safari 7) is out of date. For more security, comfort and the best experience on this site: Update your browser Ignore Activitydevelop EXPLO RING VERTEBRATE CL ASSIFICATIO N What criteria
Vertebrate Structure and Function
Vertebrate Structure and Function Part 1 - Comparing Structure and Function Classification of Vertebrates a. Phylum: Chordata Common Characteristics: Notochord, pharyngeal gill slits, hollow dorsal nerve
BioSci 110, Fall 08 Exam 2
1. is the cell division process that results in the production of a. mitosis; 2 gametes b. meiosis; 2 gametes c. meiosis; 2 somatic (body) cells d. mitosis; 4 somatic (body) cells e. *meiosis; 4 gametes
May 17, SWBAT explain why scientists classify organisms SWBAT list major levels of hierarchy
May 17, 2017 Aims: SWBAT explain why scientists classify organisms SWBAT list major levels of hierarchy Agenda 1. Do Now 2. Class Notes 3. Guided Practice 4. Independent Practice 5. Practicing our AIMS:
Animal Diversity III: Mollusca and Deuterostomes
Animal Diversity III: Mollusca and Deuterostomes Objectives: Be able to identify specimens from the main groups of Mollusca and Echinodermata. Be able to distinguish between the bilateral symmetry on a
No limbs Eastern glass lizard. Monitor lizard. Iguanas. ANCESTRAL LIZARD (with limbs) Snakes. No limbs. Geckos Pearson Education, Inc.
No limbs Eastern glass lizard Monitor lizard guanas ANCESTRAL LZARD (with limbs) No limbs Snakes Geckos Species: Panthera pardus Genus: Panthera Family: Felidae Order: Carnivora Class: Mammalia Phylum:
Striped Skunk Updated: April 8, 2018
Striped Skunk Updated: April 8, 2018 Interpretation Guide Status Danger Threats Population Distribution Habitat Diet Size Longevity Social Family Units Reproduction Our Animals Scientific Name Least Concern
Classification Write the name of Each animal below and then classify them:
Name: Class: Date: Classification Life Science Gr6 Write the name of Each animal below and then classify them: giraffe lion falcon/eagle parrot gazelle monkey Can fly Can not fly The others parrot falcon/eagle
Living Planet Report 2018
Living Planet Report 2018 Technical Supplement: Living Planet Index Prepared by the Zoological Society of London Contents The Living Planet Index at a glance... 2 What is the Living Planet Index?... 2
Get the other MEGA courses!
www.thesimplehomeschool.com Simple Schooling BUGS MEGA course is ten weeks of all about bugs! This course grabs your student s attention and never lets go! Grades K-3 Get the other MEGA courses! Simple