marine planktonic communities from hawaii ocean times series station (hot/aloha )
DESCRIPTION
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). - PowerPoint PPT PresentationTRANSCRIPT
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