Variations of the species compositions of marine bacterial communities are poorly understood, largely due to the general lack of cultivability of these organisms. With DNA hybridization, which uses total DNA directly extracted from natural bacteria and thus avoids growing pure cultures, WC compared bacterioplankton assemblages from the oligotrophic Pacific Ocean (depths: 25, 100, 500, 1,000 m), the Caribbean Sea (~20 m), and Long Island Sound (LIS; < 1 m). Comparisons were across depths, within depth, and across the three sampling locations. Temporal variations were studied with summer LIS samples taken a year apart. Deep Pacific samples (500 and 1,000 m) showed 30-90% similarity to each other, but differed from (similarities I 5%) photic-zone (25 and 100 m) samples. The photic-zone samples showed only 15-45% similarity to each other. The 25-m samples were the most variable within depth (similarities > 50%). The three ocean-basin samples each had unique community DNA (similarities < 16%). The LIS community changed as much within 2 weeks as between successive summers (similarities down to 40-50%); however, the similarities (seven samples in this and a previous study) were never <30%, suggesting a consistent subcommunity. We conclude that the total genomic DNAs of the bacterial communities varied significantly over time and space due to the different constituents of those communities, probably reflecting environmental factors.During the past decade, remarkable progress has been made in understanding the I Corresponding author. Present address: Oceanographic and Atmospheric Sciences Division, Brookhaven National Laboratory, Upton, New York 11973. AcknowledgmentsWe thank Glenn Lopez, Jeanne Poindexter, Daniel Dykhuizen, Darcy Lonsdale, Paul Kemp, and anonymous reviewers for comments and reviews on the manuscript, Tom Dickey for discussions on the California Current System, and Edward Carpenter and Douglas Capone for offering shiptime on RV Columbus Iselin. Junhyong Kim processed data for cluster analyses, and P. A. Jumars is credited for suggesting the analysis. We also thank the ship personnel of RV New Horizon and Columbus Iselin.This work was supported by National Science Foundation grants OCE roles of marine bacteria. The information accumulated is very valuable and useful, but most of the work has been done at the level ofwhole bacterioplankton assemblages with little attention given to the components. Although we are aware that dominant species probably vary among environments over time, bacterioplankton assemblages have been treated in many cases as if they are one single group regardless of sampling location and season. One of the most common ways to describe one community of bacterioplankton differently from another is by citing cell concentration or growth rate, occasionally with brief comments about dominant cell shape.Many different types of bacteria are known 1277