Sequencing

• Sequencing Strategy
• Sequencing Plans
• Statistics
• Why Sequence Them?
• MyJGI: Information for Collaborators
• Protocols

Eukaryotes

Amphipod crustaceans
Aquilegia formosa
Arabidopsis lyrata and Capsella rubella (pink shepard's purse)
The black cottonwood tree (Populus trichocarpa)
A bristle worm (Capitella capitata)
A butterfly (Bicyclus anynana)
The California mussel (Mytilus californianus)
Brachypodium distachyon
Botryococcus braunii
Campanulales chloroplasts
Cassava (Manihot esculenta)
Catfish
Ceriporiopsis subvermispora
Chestnut blight fungus (Cryphonectria parasitica)
Cichlid fish
Chlamydomonas by New Methods
Conifers
Cotton (Gossypium)
The Smallest Cotton Genome
Deep-sea tubeworm (Riftia pachyptila)
A diatom (Thalassiosira pseudonana)
A diatom (Fragilariopsis cylindrus)
Duckweed
Eucalyptus tree
Flies (Dipterans)
Foxtail millet
A frog-killing fungus (Batrachochytrium dendrobatidis)
A green alga (Chlamydomonas reinhardtii)
Guillardia theta and Bigelowiella natans
Hansenula polymorpha
Heterobasidion annosum
Human (Homo sapiens)
The Hydractinia allorecognition gene complex
Karenia brevis
The leech (Helobdella robusta)
The limpet (Lottia scutum)
A liverwort (Marchantia polymorpha)
Loblolly Pine BACs
Mating loci of C. reinhardtii and V. carteri
The monkey flower (Mimulus guttatus)
A moss (Physcomitrella patens)
A mushroom (Agaricus bisporus)
Mycosphaerella fijiensis
Neurospora
Ostreococcus (low-light strain)
Paralvinella sulfincola ESTs
Paxillus involutus (a fungus)
Peronosporomycetes
Phycomyces blakesleeanus (a zygomycete fungus)
Phytophthora capsici (root and crown rot)
Phytoplankton (Phaeocystis antarctica)
Phytoplankton (Phaeocystis globosa)
Piromyces (a chytrid fungus)
The Pompeii worm (Alvinella pompejana)
Poplar leaf rust (Melampsora larici-populina)
A porcelain crab (Petrolisthes cinctipes)
Predatory Nanoflagellates
A protozoan (Tetrahymena thermophila)
The pufferfish (Takifugu rubripes)
A red alga (Porphyra purpurea)
A red yeast (Sporobolomyces roseus)
Reef-building corals and their symbionts
The soybean cyst nematode
The sponge Reniera
The sea squirt (Ciona intestinalis)
Triphysaria (a parasitic wildflower)
Two-spotted spider mite (Tetranychus urticae)
Seed plant mitochondria
Selaginella moellendorffii
Sorghum
Soybean
Spironucleus vortens and Naegleria gruberi
Sudden oak death and soybean blight
pathogens (P. ramorum and P. sojae)
Sweet Orange
Switchgrass
Thalassiosira rotula
Trichoderma reesei
Trichoderma reesei mutant strains
Trichoderma virens
Trichoplax
The western clawed frog (Xenopus tropicalis)
Wheat and banana pathogens (Mycosphaerella)
White rot fungus (Phanerochaete chrysosporium)
Xanthoria parietina (a lichen fungus)

Bacteria

Three Acidovorax species
Actinobacteria
Aerobic sulfur bacteria (Halothiobacillus neapolitanus and Thiomonas intermedia)
Allochromatium vinosum
Bacillus cereus strains
Bacillus coagulans
Bacteroidetes
Beggiatoa alba
Beijerinckaceae
Biogeochemically important bacteria
Burkholderia
Candidatus Endomicrobium trichonymphae
Caulobacters
Cellulose Degrading Bacteria
Crenothrix polyspora
Cyanothece
Desulfurococcus species
Frankia Cluster 2
Frankia strains
Freshwater iron-oxidizing bacteria
Lactobacillus reuteri
Marinobacter aquaeolei
Methanomicrococcus blatticola
Methanotrophic bacteria, Types I and II
Methylotenera species
Micromonosporas
Nitrosomonas
Oyster mushroom (Pleurotus ostreatus)
PAH-Degrading Burkholderia
Pedomicrobium manganicum
Polynucleobacter
Prochlorococcus
Pseudonocardia dioxanivorans
Rhizobium leguminosarum
Rhodobacter sphaeroides
Rhodopseudomonas palustris strain DX-1
Salinispora species
Selenospirillum indicus
Sinorhizobium medicae
Stalked bacteria
Staphylococcus aureus VISA strains
Starkeya novella
Sulfur-oxidizing bacteria
Sulfur compound reducers
Thauera
Thellungiella halophila
Thermolithobacter ferrireducens
Thermotogales (extremophiles)
Thermovibrio ammonificans
Variovorax paradoxus
Five Verrucomicrobia
A Group 4 Verrucomicrobium
Zymomonas mobilis strains

Archaea

Crenarchaeota
Hyperthermophilic archaea
A methane-oxidizing archaeon
Natrialba magadii
Six archaea
Thermophilic Methanoarchaea

Metagenomes (communities of multiple species)

Accumulibacter, Type I
an Alaskan soil
Anammox Bacteria
Antarctic marine bacterioplankton
Bacteria from stromatolites
Bankia setacea (shipworm) metagenome
Benzene-degrading methanogenic consortium
A biogas-producing microbial community
Contaminated groundwater
A dechlorinating community
Euryarchaeota in acid mine drainage
Extreme Microbial Habitats from Yellowstone National Park
Uranium-Contaminated Site (Hanford)
Hypersaline microbial mats
A Korarchaeota community
Marine viruses
Microbes in a termite's gut
Near-shore anoxic basin (Saanich Inlet)
Root-colonizing crenarchaeotes and their community
Symbionts in a gutless worm (Olavius algarvensis)
A Rhodocyclus-like polyphosphate-accumulating organism
Terephthalate-degrading microbes
Wastewater treatment plant