This entry included links to metadata for whole genomes sequences of different microbial pathogens, including: 

Pathogenic protozoan microorganism (amoeba):
Acanthamoeba polyphaga strain Linc Ap-1
This entry includes data for 1) chromosome and 2) mitochondrion of this microorganism; it contains links to both Whole Genome Sequence (WGS) and Sequence Reads Archive (SRA) metadata

WGS of pathogenic bacteria: 

Gardnerella vaginalis 14018
Gardnerella vaginalis 14018c

Neisseria meningitidis L91543

Campylobacter: 
hybrid C. jejuni strain 81-176 G1_B7
hybrid C. jejuni strain 81-176 G1_B0
araE derivative of C. jejuni 11168H
lacY derivative of C. jejuni 11168H