From Swab to Publication Sample Data (Tatumella)

<p>Raw fastq reads (contaminated with yeast)</p> <p>Sanger 16s .ab1</p> <p>RAST 16s fasta</p> <p>RDP alignment</p> <p>Cleaned up alignment </p> <p>FastTree phylogenetic tree</p> <p>FastTree rerooted phylogenetic tree</p> <p> </p

Phylogenetic tree from RDP of Dietzia sp str UCD-THP

<p>An RDP-generated 16S phylogenetic tree of Dietzia sp str UCD-THP along with numerous Dietzia and Kocuria isolated, as well as an outgroup.</p

Cobetia_clean.nexml

A phylogenetic tree showing the placement of Cobetia sp UCD-24C in relation to the rest of the genus.<br

Phylogenetic tree from RDP showing Kocuria sp str UCD-OTCP

<p>This is an RDP-generated 16S tree showing Kocuria sp str UCD-OTCP in the context of 160 other Kocuria isolates and one outgroup.</p

Arthrobacter Tree

A phylogenetic tree showing Arthrobacter sp UCD-GKA in context with related sequenced downloaded from the Ribosomal Database Project.   The tree was inferred using FastTree.<br

A concatenated marker gene tree of Pseudomonas moraviensis UCD-KL30 and close relatives.

A concatenated marker gene tree of <i>Pseudomonas moraviensis</i> UCD-KL30 and close relatives.<br

Phylogenetic tree from RDP of Curtobacerium flaccumfaciens UCD-AKU

<p>A RDP-produced 16S tree of Curtobacterium flaccumfaciens UCD-AKU in the context of a couple hundred Curtobacterium isolates and an outgroup.</p

Raw reads from genomic sequencing of Brachybacterium muris UCD-AY4

<p>Raw Illumina MiSeq paired-end 160 bp reads from genomic sequencing of Brachybacterium muris UCD-AY4</p

Trees for seagrass paper

This zipfile contains three phylogenetic trees in PDF format.  These show the relationship of our Shewanella, Vibrio, and Colwellia isolates to their close relatives.  The alignments were generated using the Ribosomal Database Project and the trees were inferred using FastTree.<br

Phylogenetic Tree of Tatumella sp UCD-D_suzukii

<p>A FastTree generated 16s phylogenetic tree, of an RDP alignment, of Tatumella sp UCD-D_suzukii along with numerous Pantoea and Tatumella isolates, as well as an outgroup (Budvicia aquatica).</p