You may also add sequences via GB accession numbers, for which you can use add file function accessed via right-click - just paste accession number(s) into the Input IDs window, and PhyloSuite will download them automatically: For this purpose, just drag them into the area shown in the figure. Usually, you will have to add your own and outgroup sequence(s) separately. You can easily add other sequences to this dataset using the same methodology. Drag the file containing downloaded sequences/IDs and drop it in the area specified in the figure (display area).First select any working folder (files or flowchart).Alternatively, you may select just the Accession List (either via file or clipboard options).Īfter the sequences/IDs are downloaded/copied, you can drag-drop the file directly into PhyloSuite, or click open file(s)/input ID(s) and paste the list of accession numbers there and let PhyloSuite download the selected files. Select Complete Record -> File -> GenBank to save the complete mitogenomes.These keywords can be adjusted according to your needs This search comprises 3 parts: first we define the target taxonomic group ( Monogenea), then define sequence type (mitochondrion OR mitochondrial), and finally predefine the length range of the sequence ( 10000:50000). Enter Monogenea AND (mitochondrion OR mitochondrial) AND 10000:50000 into the search box.After entering the NCBI’s main website (), follow the steps below: We will search for all available mitogenome sequences of the class Monogenea, but this method can be applied to any other taxonomic group. Since PhyloSuite is designed both for experts and students, we will briefly introduce how to search for sequences in GenBank. In order to make it easier for users to get started, here we briefly introduce the use of PhyloSuite using an example of all available Monogenea (class) (Platyhelminthes) mitochondrial genomes (mitogenomes).Īuthor’s Note: To save space, the contents duplicated with our single-gene tutorial will not be detailed in this article. PhyloSuite: from data acquisition to phylogenetic tree annotation (muti-gene dataset)
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