Major patterns of actinopterygian phylogenies: A new perspective based on >200 complete mitochondrial DNA sequences - PowerPoint PPT Presentation

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Major patterns of actinopterygian phylogenies: A new perspective based on >200 complete mitochondrial DNA sequences

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Major patterns of actinopterygian phylogenies: A new perspective based on 200 complete mitochondrial – PowerPoint PPT presentation

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Title: Major patterns of actinopterygian phylogenies: A new perspective based on >200 complete mitochondrial DNA sequences


1
Second International Barcode of Life
Conference 1820 September 2007 in Taipei
Evolutionary History of Fishes An Overview
Based on gt1000 Whole Mitochondrial Genome
Sequences
Masaki Miya1 and Mutsumi Nishida2
1 Natural History Museum and Institute, Chiba
2 Ocean Research Institute, University of Tokyo
2
Ray-finned fish in vertebrates
3
Origin of ray-finned fish
4
The knowns and unknowns
5
A summary of the initial stage
6
Four separate analyses An overview
7
Evolutionary Mitogenomics of Fishes (EMFish)
  1. 16,500 bp x 327 spp.
  2. Phylogenetic analysis
  3. Divergence time estimation
  4. Macroevolutionary analysis

8
EMFish Some statistics
9
Fish-BOL character and taxon samplings
10
EMFish character and taxon samplings
11
Fish-BOL
Number of leaves
12
EMFish
Topology of branches
13
New insights into evolutionary history
Molecular Phylogeny
14
EMFish
Fish-BOL
15
(No Transcript)
16
Second International Barcode of Life
Conference 1820 September 2007 in Taipei
Evolutionary Genomics of Fishes A New
Perspective Based on Whole Mitochondrial Genome
Sequences from gt1000 species
Masaki Miya1 Mutsumi Nishida2
1 Natural History Museum Institute, Chiba 2
Ocean Research Institute, University of Tokyo
17
Nuclear vs. mitochondrial genomes
Schematic figure of a cell
Size (human) 3.0 108 bp 16,500 bp
(redundant) (compact)
Number of genes 30,000 13
Mode of inheritance Mendelian maternal (recombina
tion) (no recombination)
Mode of variations DNA substitutions/indels
substitutions/indels Gene
duplications/indels/translocations
Chromosome same as above inversion
Genome polyploidy
Homology assessment difficult easy
18
Development of the new method
1. Long PCRs
2. Full-nested short PCRs
3. Direct cycle sequencing
Miya Nishida (1999) Mar. Biotechnol. 1 416426
19
Sister of the Salmonidae
Sister-group of the Salmonidae
20
Sister of the Salmonidae
Sister-group of the Salmonidae
21
A project summary1. Published studies
14. Foundation of mitochondrial (phylo)genomics
of fishes (10 published papers)
22
A project summary1. (continued)
23
continued
Continued total, 54 papers cited gt1000 times
24
A project summary2. Ongoing studies
25
A project summary3. Database
26
AToL
International collaboration
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