Gene-sequence analysis reveals at least three species hidden in Zausodes arenicolus Erin Easton November 13, 2008.

Slides:



Advertisements
Similar presentations
Ortholog vs. paralog? 1. Collect Sequence Data Good Dataset
Advertisements

Success of DNA barcoding in distinguishing sister species of diverse clades of birds Allan Baker, Erika Tavares, Rebecca Elbourne Department of Natural.
 Aim in building a phylogenetic tree is to use a knowledge of the characters of organisms to build a tree that reflects the relationships between them.
1 General Phylogenetics Points that will be covered in this presentation Tree TerminologyTree Terminology General Points About Phylogenetic TreesGeneral.
Molecular Evolution Revised 29/12/06
Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes Fulgerator Paul Hebert, Erin Penton, John Burns,
A COMPARISON OF APPROACHES FOR VERIFYING SOUTHWEST REGIONAL GAP VERTEBRATE-HABITAT DISTRIBUTION MODELS J. Judson Wynne, Charles A. Drost and Kathryn A.
Dispersal models Continuous populations Isolation-by-distance Discrete populations Stepping-stone Island model.
Chapter 2 Opener How do we classify organisms?. Figure 2.1 Tracing the path of evolution to Homo sapiens from the universal ancestor of all life.
Genetic variation on mtDNA Cytb sequence of three populations of Chilean jack mackerel (Trachurus murphyi ) from the Southern Pacific Min ZHANG, Yong-jiu.
Caitlyn Roan, Tara Connor, and John Grimsley. The Blenny: Ophioblennius One of the most diverse suborders of teleost fishes 723 species 127 genera 6 families.
Finding relationships and differences by bar-coding jellyfish species Dr. David Pontin.
Molecular phylogenetics
Chapter 26: Phylogeny and the Tree of Life Objectives 1.Identify how phylogenies show evolutionary relationships. 2.Phylogenies are inferred based homologies.
LECT 4. What is Cloning? The terms recombinant DNA technology, DNA cloning, molecular cloning, or gene cloning all refer to the same process: the transfer.
DNA barcoding of soldierless termites from South America: the Anoplotermes group (Termitidae) Genetic investigations were carried out by JEMU - Joint Experimental.
Phylogenetics and Coalescence Lab 9 October 24, 2012.
Bioinformatics 2011 Molecular Evolution Revised 29/12/06.
FISH SPECIES IDENTIFICATION AND BIODIVERSIFICATION IN ENUGU METROPOLIS RIVER BY DNA BACODING PRESENTED BY Chioma Nwakanma (PhD) Michael Okpara University.
Phylogenetic Prediction Lecture II by Clarke S. Arnold March 19, 2002.
Phylogenetic Trees  Importance of phylogenetic trees  What is the phylogenetic analysis  Example of cladistics  Assumptions in cladistics  Frequently.
Analysis of Mitochondrial DNA from Chimpanzees in Tanzania Timothy Comar, April Bednarski, and Douglas Green.
Figure 1. Map depicting the supposed evolutionary history of terrestrial leeches in North America. Shaded area represents the Appalachian Range. (●) Haemopis.
Patterns of divergent selection from combined DNA barcode and phenotypic data Tim Barraclough, Imperial College London.
Species boundaries, phylogeography and conservation genetics of the red- legged frog (Rana aurora/drytonii) complex Presented by: Chris Burton & Matt Meyer.
Phylogeography of Leucetta chagosensis (Porifera, Calcarea) Christoph Flucke, Jens Kurz, Rasmus Liedigk, Zdenka Valenzova Fig.4: RAxML Phylogram Fig.5:
Fish -Nearly half of all vertebrates species : marine, freshwater species (Fish base) FISH-BOL(Fish Barcode of Life Initiative) -Establish.
Northern Star Coral (Astrangia poculata) Populations from the New Jersey Coast. Abstract- This project investigated the distribution and molecular evolution.
Phylogenetic analysis of flatfish species (Teleostei, Pleuronectiformes) based on cytochrome oxidase 1 (Co-1) and cytochrome b (Cyt-b) genes Sharina S.N.,
Choosing the most parsimonious tree
Chapter 24: Speciation Objectives -Importance of reproductive isolation in the biological species concept -Speciation can take place with or without geographic.
Introduction Biodiversity is important in an ecosystem because it allows the species living in that ecosystem to adapt to changes made in the environment.
Unidentified Flora of the Upper Peconic River Authors: Angela Blangiforti, Theresa Blangiforti Sabrina Sauerwald, Edward Spagnuolo Teachers: Robert Bolen,
Freshwater Mussel Collaborative Study for Wastewater Treatment Plants May 23, 2016 Validation of Environmental DNA for Determining Presence of Unionid.
Identification of Drosophila species based on 16S rRNA and CO1 gene sequences Mohammad Shamimul Alam, Khandaker Asif Ahmed, Rowshan Ara Begum, and Reza.
From: On the Origin of Darwin's Finches
Phylogenetic genome analysis, phylogenomics
related to Careproctus melanurus Gilbert 1892
Introduction to Bioinformatics Resources for DNA Barcoding
Introduction Conclusion References Aim of the work
Cryptic Sucker Species of the Northeast
Session [VI] : Basic and Applied Zoological Researches
Biodiversity of dogfishes (genus SQUALUS) in the eastern Atlantic and Mediterranean Sea – a molecular perspective A. VERÍSSIMO, D. ZAERA-PEREZ, R. LESLIE,
Molecular Phylogeography of the Japanese Weasel Mustela itatsi and the Siberean Weasel Mustela sibrica, revealed by complete mitochondiral DNA sequences.
2Seaweed Unit, Department of Agriculture, Forestry and Fisheries
5.4 Cladistics.
Phylogeny and the Tree of Life
Warm-Up Contrast adaptive radiation vs. convergent evolution? Give an example of each. What is the correct sequence from the most comprehensive to least.
Warm-Up Contrast adaptive radiation vs. convergent evolution? Give an example of each. What is the correct sequence from the most comprehensive to least.
Why could a gene tree be different from the species tree?
Summary and Recommendations
Taxonomical classification is recognizing and registering the worlds organism diversity – continual changing knowledge about evolutionary and ecological.
Warm-Up Contrast adaptive radiation vs. convergent evolution? Give an example of each. What is the correct sequence from the most comprehensive to least.
Classification.
Track the Split of Crocodile Sub Populations
Chapter 19 Molecular Phylogenetics
Phylogeny and the Tree of Life
Development of a real-time PCR assay for the specific detection and identification of Streptococcus pseudopneumoniae using the recA gene  V. Sistek, M.
Molecular data assisted morphological analyses
Phylogenetic tree based on 16S rRNA gene sequence comparisons over 1,260 aligned bases showing the relationship between species of the genus Actinomyces.
Phylogenetic tree showing generic and species positions based on Bayesian analysis of the nuclear ribosomal DNA 28S region (1,200 bp) of Schistosomatidae.
5.4 Cladistics.
Summary and Recommendations
But what if there is a large amount of homoplasy in the data?
Neighbor-joining tree based on nifH for 20 organisms along with the maximum-likelihood sequence obtained from aligning the soil data to the gene sequence.
Comparison of Nonpareil Nd sequence diversity and 16S rRNA gene OTU Shannon H′ taxonomic diversity indices on 90 metagenomes. Comparison of Nonpareil Nd.
1 2 Biology Warm Up Day 6 Turn phones in the baskets
Tree depicting the phylogenetic relationships of all strains included in this study. Tree depicting the phylogenetic relationships of all strains included.
16S rRNA-based phylogeny of sponge-associated cyanobacteria and chloroplasts. 16S rRNA-based phylogeny of sponge-associated cyanobacteria and chloroplasts.
Unrooted neighbor-joining tree of 16S rRNA gene sequences from low-G+C-content gram-positive bacteria, obtained from clone libraries. Unrooted neighbor-joining.
Presentation transcript:

Gene-sequence analysis reveals at least three species hidden in Zausodes arenicolus Erin Easton November 13, 2008

Zausodes-complex species Bouck et al., (1999) split genus and described new species Five species occur locally Species co-occur

Z. arenicolus and Z. septimus Occur in an implausible number of habitats Have been used in ecological studies (including local studies)

Verification important If Bouck et al. are correct, then (1) ecological studies should be redone, (2) Zausodes species are less attractive for ecological studies, and (3) the new morphological characters provide additional tools for taxonomic discrimination

Verify with DNA-sequence data Presence of phenotypic plasticity Absence of morphological differentiation Identification of taxonomic groups that need additional taxonomic revision Increase in confidence of species’ boundaries with a combined morphological and DNA-sequencing approach

Purpose To use DNA-sequence methods to test the reliability of the species’ boundaries proposed by Bouck et al. (1999) for specimens collected in the northeastern Gulf of Mexico. To test whether evidence of unrecognized species exists using DNA-sequence data.

Samples Five sites Five species Specimens identified by morphological characters

Obtaining sequences DNA was extracted Target genes were amplified and sequenced

Analyze sequences Align sequences Develop neighbor-joining and maximum likelihood trees

Compare and re-evaluate Compare morphological and DNA-sequence data with respect to species’ boundaries Identify whether additional morphological characters were overlooked

Cytochrome b ML tree Bayesian over bootstrap

Morphological re-evaluation Three morphotypes observed in Zausodes arenicolus Differences in P5 endopod setae

Conclusions Combined DNA-sequence and morphological data suggest at least three species hidden in Zausodes arenicolus. Bouck et al.’s characters supported but species were still overlooked. Sequence data reveal specimens that require additional taxonomic focus.

Thank you

Cytochrome b divergences

18S ML tree Z. arenicolus are divided into four clades Least divergent cytb clades form one 18S clade

18S divergences

Future plans Apply combined DNA-sequence and morphological analysis to deep-sea harpacticoids to better understand their ranges and genetic diversity.