The most easiest way to use Zotero with PubMed is through the Zotero/Firefox integration option. Zotero embeds itself as an add on to Firefox. Once installed you will see a icon in the status bar in the right bottom corner of your Firefox browser window. Clicking on this button will open up the Zotero pane.
You will see a yellow folder in the status bar of your browser when you search PubMed using the Firefox broswer. Click on the yellow folder icon in the address bar. This will open up a pop up window. Zotero recognizes the citations from your PubMed search. Select the citations you wish to download in the Zotero pop up window and then click "OK." Your citations will be added to your Zotero Library. Tip: The citations will be automatically downloaded into whatever folder you have preselected.
Zotero is able to retrieve your PubMed citations, but not the full text pdf of the articles. You will need to download these separately, and add the pdf's to your library.
Want to learn more about Zotero? See our Zotero LibGuide.