Marine planktonic communities from Hawaii Ocean Times Series Station (HOT/ALOHA)

Mark Anderson (University of Chicago)Ildiko Frank (UCSC)

Yvonne Lipsewers (NIOZ, Netherlands)Sara Cuadros Orellana (CEBio, Brazil)

Lise Øvreas (University of Bergen)Judy Wan (NASA)

22º45’, 158º 00’ W

Oct 2002 – Dec 2003

Time and location of sampling

Vertical profiles of physico-chemical parameters at the ALOHA Station

1070

130200500770

4000

Genome Name Depth (m) Bases GC (%) Genes Enzymes Enzymes (%) KEGG (%) COG (%) Pfam (%)1_Upper_euphotic 10 7482595 49 11252 1548 13.76 14.80 45.73 40.466_Upper_euphotic 70 10828386 49 16067 1604 9.98 10.94 38.21 34.86

2_Base_of_chrolophyll_max 130 6091158 53 7696 1030 13.38 13.71 43.80 37.533_Below_base_of_euphotic 200 7829614 51 11155 1314 11.78 12.08 45.41 40.10

5_Below_upper_mesopelagic 500 8764592 52 13784 1883 13.66 14.75 49.41 42.877_Oxygen_minimum_layer 770 11811597 48 16686 2407 14.43 15.19 50.41 44.65

4_Deep_abyss 4000 11028821 54 16740 2273 13.58 13.85 50.70 44.92

Metagenome Statistics

• Bidirectional DNA sequencing of fosmid clones (~ 10,000 sequences per depth)• ~ 64 Mbp of DNA sequence total

Sequencing methodology

Questions:

Differences in the environmental parameters microbial community composition?

Dominant populations?

Functional variations ?

Abundance profile differences?

Community similarity based on genus countCompare Genome Genome Clustering Genus, Hierarchical Clustering / PCA

10 m130 m 770 m 4,000 m

Phylogenetic DistributionCompare Genome PhyloDist Metagenomes vs Genomes Gene Count (60+)

Virus

10 m130 m 770 m 4,000 m

Phylogenetic DistributionCompare Genome PhyloDist Metagenomes vs Genomes Gene Count (60+)

Cren Eury Nano

10 m130 m 770 m 4,000 m

Cyano ProteoActino Bacteroidetes

Phylogenetic DistributionCompare Genome PhyloDist Metagenomes vs Genomes Gene Count (60+)

VerrucoPlanctomycFirmicChloroflex

Upper (10 m)Chloro Max. (130 m) Abyss (4,000 m)

Phylogenetic DistributionCompare Genome PhyloDist Radial Tree Customize (Phyla) / Bar

Gene of interestFind Genes Gene Search “rhodopsin”

Gene of interestFind Genes Gene Search “nitrogenase”

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Function ProfileFind Function COG Browser Click "Flagellum structure and biogenesis" Search All Add Selected to Function Cart Compare Genomes Function Profile View Function vs. Genomes Search Name for "type"

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Function ProfileFind Function COG COG Browser “Cell Motility” Search COG Name “Type” Select all / Add to Function Cart Compare genomes Function Profile View Functions vs. Genomes Filter “Flagellar”

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Function ProfileFind Gene Gene Search “Transposase”

Conclusion:

Differences in the environmental parameters microbial community composition? Light (rhodopsin) Nutrients (nitrogenase)

Dominant populations? Proteobacteria

Functional variations? Flagellar proteins – no pattern Transposase – abundant at depth

Abundance profile differences? Cyanobacteria