Environment: Monterey Bay

Created by George Rice, Montana State University

An example of the types of long-term data the CTD cruises have provided about the seasonal patterns in the Monterey Bay upper water column; these data are for Station C1, the closest station to shore. (plot courtesy of the Biological Oceanography Group, MBARI)

Results:Monterey Bay MO

Table showing the details of the four Monterey Bay environmental genomic libraries.

Table showing the fully sequenced clones from the DeLong Lab environmental genomic libraries.

Phylogenetic reconstruction of family trees from environmental genomic libraries:

(click on figure title to download pdf's of the individual phylogenetic trees) 

Figure 1 (Acrobat (PDF) 270kB Feb2 06) from Suzuki et al 2004. A zoom-in on one region of the family tree of some of the Monterey Bay environmental clones. Phylogenetic reconstruction (neighbor joining) of the planktonic gamma-Proteobacteria including near-full-length SSU rRNA sequences (>1400 base pairs) of isolates and BAC clones (boldface), and nonchimeric environmental rRNA clones (prefix env. clone). Burkholderia cepacia (not shown) was used as the outgroup. Bootstrap values were based on 100 replicated trees. * Denotes groups that contain only rRNA gene clones retrieved in PCR-based clone libraries. Underlined clades represent newly defined groups. Bolded clades do not contain cultured representatives.

Figure 2 (Acrobat (PDF) 263kB Feb2 06) from Suzuki et al 2004. Another family-tree zoom-in. Phylogenetic reconstruction (neighbor joining) of the Roseobacter group including near-full-length SSU rRNA sequences (>1400 base pairs) of isolates and BAC clones (boldface), and nonchimeric environmental rRNA clones (prefix env. clone). Bootstrap values were based on 100 replicated trees. * Denotes groups that contain only rRNA gene clones retrieved in PCR-based clone libraries. Underlined clades represent newly defined clades. Bolded clades do not contain cultured representatives.

Figure 3 (Acrobat (PDF) 244kB Feb2 06) from Suzuki et al 2004. A third family-tree zoom-in on a region of the "Tree of Life" and the Monterey Bay clones. Phylogenetic reconstruction (neighbor joining) of the class Rhodospirillales including near-full-length SSU rRNA sequences (>1300 base pairs) of isolates and BAC clones (boldface), and nonchimeric environmental rRNA clones (prefix env. clone). Bootstrap values were based on 100 replicated trees. * Denotes groups that contain only rRNA gene clones retrieved in PCR-based clone libraries. Underlined clades represent newly defined clades. Bolded clades do not contain cultured representatives.

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Copyright on all images and material by Ed DeLong, 2005.