Evolutionary dynamics of UQ FMOs in the proteobacterial lineage.

Slides:



Advertisements
Similar presentations
1 Orthologs: Two genes, each from a different species, that descended from a single common ancestral gene Paralogs: Two or more genes, often thought of.
Advertisements

GENE TREES Abhita Chugh. Phylogenetic tree Evolutionary tree showing the relationship among various entities that are believed to have a common ancestor.
Phylogenetic reconstruction
Dispersal models Continuous populations Isolation-by-distance Discrete populations Stepping-stone Island model.
Gene transfer Organismal tree: species B species A species C species D Gene Transfer seq. from B seq. from A seq. from C seq. from D molecular tree: speciation.
Chapter 26: Phylogeny and the Tree of Life Objectives 1.Identify how phylogenies show evolutionary relationships. 2.Phylogenies are inferred based homologies.
Choosing the most parsimonious tree
Phylogeny.
Chapter 26 Phylogeny and the Tree of Life
Molecular Clocks and Continued Research
Unrooted phylogenetic tree showing the relationship between the human SLC2A gene family for all 14 members created using PHYLIP 3.6 softwareDistance between.
Molecular Phylogeny Similarity among organisms (and their genes) is the result of descent from a common ancestor. Variation occurs via genetic drift and.
Pipelines for Computational Analysis (Bioinformatics)
Announcements.
Cladistics (Ch. 22) Based on phylogenetics – an inferred reconstruction of evolutionary history.
Endeavour to reconstruct the characters of each hypothetical ancestor.
16S rRNA gene abundance and total gene expression of Tannerella species in healthy patient and periodontitis patient samples. 16S rRNA gene abundance and.
Representation of the evolutionary model.
Relation of FRET change to fusion pore opening and dilation.
by L. Aravind, Vishva M. Dixit, and Eugene V. Koonin
Genome Evolution: Horizontal Movements in the Fungi
Genome Evolution: Horizontal Movements in the Fungi
Distribution of the known and new candidate genes involved in hydroxylation reactions of UQ biosynthesis in proteobacteria. Distribution of the known and.
Volume 22, Issue 6, Pages (June 2012)
Chapter 26.5: Horizontal Gene Transfer
Effect of protocol modifications.
Fractions of 16S rRNA genes from bacteria (top panel) and archaea (bottom panel) in public databases from primer-amplified metagenomes (with and without.
Phylogenetic relationships between representatives of the Bacteroidetes “Candidatus Amoebophilus” (based on 1,218 bp) and amplicon SSU rRNA gene sequences.
Characterized LuxR-associated and QS-regulated BGCs were identified in our screen. Characterized LuxR-associated and QS-regulated BGCs were identified.
Archaea and the Origin(s) of DNA Replication Proteins
Correlation of mouse gene expression with bacterial gene expression.
Phylogenetic tree of perA A2-domain DNA sequence.
Volume 103, Issue 5, Pages (November 2000)
OTU and beta-diversity novelty.
Phylogenetics Chapter 26.
Box plots of quality scores over positions in sequenced reads.
Locations of genes that exhibited decreased levels of distribution of the RpoZ-defective RNAP. The genes that showed decreased-level distribution of RpoZ-defective.
Phenotype gain and loss dynamics match protein family dynamics.
Distribution of microbial functions in urban waterways.
Maximum likelihood (ML) unrooted tree based on the full-length 16S rRNA genes (A) and 31 conserved single-copy genes (B) showing the phylogenetic position.
Gautam Dey, Tobias Meyer  Cell Systems 
Phylogenetic tree of 38 Pseudomonas type strains, based on the V3-V5 region sequence of the 16S rRNA gene (V3 primer, positions 442 to 492; and V5 primer,
Unit Genomic sequencing
Biosynthetic pathway of ubiquinone 8 (UQ8) in E. coli.
Proportion of 16S rRNA gene sequences in each category of phylogenetic novelty relative to cultures for each environment, by amplicons, metagenomes (without.
Inferring Tumor Phylogenies from Multi-region Sequencing
Chapter 26 Phylogeny and the Tree of Life
Chapter 20 Phylogeny and the Tree of Life
Comparing DNA Using Blast
Phylogeny and the Tree of Life
Phylogenetic Trees Vocab
RNA abundance correlates with fitness.
Diagram of fusion primers and dual-indexing approach for library construction. Diagram of fusion primers and dual-indexing approach for library construction.
Putative sources of interphylum horizontal gene transfer in the M
Comparison of Nonpareil Nd sequence diversity and 16S rRNA gene OTU Shannon H′ taxonomic diversity indices on 90 metagenomes. Comparison of Nonpareil Nd.
Relationship between relative abundance and transcription/abundance ratio (logarithmic scales) of OTUs (brown), ZOTUs (turquoise), and population genomes.
Assessment of plasmid lateral transfer between representative B
Detection of spiked bacteria.
Sequence variation of 16S rRNA gene primer-binding sites.
Bicuculline-sensitive current sharpened the frequency response.
Phylogenetic analysis of AquK2P.
ITS rRNA gene locus. ITS rRNA gene locus. Schematic of the eukaryotic ribosomal gene cluster. The SILVA database contains sequences of the 18S gene, while.
Comparison of gut microbiota alpha diversity in different preservatives based on 16S rRNA gene V3-V4 amplicon sequencing. Comparison of gut microbiota.
KEGG categories of host DEGs (up- and downregulated genes) enriched at selected points after φAbp1 infection. KEGG categories of host DEGs (up- and downregulated.
P-network of 2,616 prokaryote genomes based on chromosomal sequences with rRNA genes removed. P-network of 2,616 prokaryote genomes based on chromosomal.
Recombination of a Cas9-created DNA fragment with and without end repair. Recombination of a Cas9-created DNA fragment with and without end repair. (A)
Phylogenetic tree based on predominant 16S rRNA gene sequences obtained by C4–V8 Sutterella PCR from AUT-GI patients, Sutterella species isolates, and.
1 2 Biology Warm Up Day 6 Turn phones in the baskets
Phylogenetic tree of Shigella, EIEC, and nonpathogenic E
Tree depicting the phylogenetic relationships of all strains included in this study. Tree depicting the phylogenetic relationships of all strains included.
Presentation transcript:

Evolutionary dynamics of UQ FMOs in the proteobacterial lineage. Evolutionary dynamics of UQ FMOs in the proteobacterial lineage. The schematic phylogenetic tree is based on 16S rRNA sequences of the proteobacterial subclasses. The potential innovation of the UQ molecule in the alpha-, beta-, and gammaproteobacterial common ancestor is indicated. The different UQ FMO-encoding genes are represented within the three proteobacterial subclasses and their common ancestors. “anc” stands for the ancestral forms of the respective genes. The duplication of ubiI that gave rise to ubiF and the duplication that occurred for ubiM and ubiL are indicated by solid arrows. Potential horizontal gene transfer events are shown with dashed-line arrows. Ludovic Pelosi et al. mSystems 2016; doi:10.1128/mSystems.00091-16