At 600 kb, the genome of Mycoplasma genitalium is among the smallest k
nown for cellular organisms capable of independent replication. As suc
h, elucidation of the genetic makeup and chromosome architecture of th
is organism is of considerable interest. We have located 631 markers o
n the physical map of M. genitalium. The clones have been mapped by hy
bridizing 20 overlapping cosmid and lambda clones which encompass the
entire M,genitalium chromosome to replica filters containing 856 genom
ic DNA clones. Three hundred fifty six of these clones represent seque
nce tag sites, which were previously characterized by database searche
s. The remaining markers represent clones with an average size of 2.5
kb derived from Sau3A1 partial digestion of genomic DNA. The hybridiza
tion data can be divided into three classes: clones which hybridized t
o only one cosmid; clones which hybridized to two adjacent and overlap
ping cosmids; and clones which hybridized to several cosmids, which re
present repetitive DNA. This rapid approach for placing clones on the
physical map has allowed useful comparisons to be made with other bact
erial chromosomes, especially that of the closely related organism M.
pneumoniae, and has provided insight to the types of events which may
have led to the reduction in size of this genome. Future use of these
data is discussed.