Life through a cytochrome P450 lens David R. Nelson

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Life through a cytochrome P450 lens
David R. Nelson
University of Tennessee, Memphis
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PLANTS
3387
PROTISTS
239
FUNGI
ARCHAEA
18
1384
ANIMALS
2872
BACTERIA
912
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Increases by Taxon

• Plants
• Animals
• Fungi
• Bacteria
• Protists
• Archaea

1455
593
383
291
29
10
4
Carica papaya
Selaginella mollendorffii
Medicago truncatula
Pinot noir
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Daphnia pulex
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terpineol
Linalool
Lauric acid
Camphor
CYP111A1
CYP108A1
CYP107A1 CYP107B1
CYP101A1
CYP102A1
Pravastatin
RDX
Vancomycin
CYP105A3
CYP165A3
CYP171A1
CYP177A1
Ethyl tert-butyl ether
C6-C11 Alkanes
CYP249A1
CYP167A1
CYP153A6
CYP129A2 CYP131A1 CYP131A2
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3305 P450s from seawater 519 named P450s 3824
seqs.
Cluster with CD-HIT _at_ 90
2211 clusters
Select one representative seq. from each cluster
Cluster with CD-HIT _at_ 60
1143 clusters
Select one representative seq. from each cluster
Make seq. align. with Muscle
Filter out short sequences
566 sequence alignment
Make NJ tree
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LB1
From Shibu Yooseph at JCVI
LB2
105/107
E
o
S
S
S
108
153
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Vitis
core eudicot CYPs
Populus
Arabidopsis
papaya
core angiosperm CYPs
rice
Selaginella
core land plant CYPs
moss
Chlamydomonas
gibberellin pathway
Phenylpropanoid pathway
Family
Clan
CYP71 clan
Vitis
Populus
Arabidopsis
papaya
rice
Selaginella
moss
Chlamydomonas
First CYP88 90, 707 seqs
Family
Clan
CYP85 clan
CYP72 clan
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Land plant core
51 97 710 74 86 94 704 73 78 98 701 703
algae
Oxylipins Cutins
C4H
C3H
Pollen formation
Sterols Carotenoids
Gibberellin 1
New in Selaginella
77 88 90 707 711
Gibberellin 2, Brassinosteroids Abscissic acid
New in angiosperms
96 75 76 92 71 706 84 79 81 89 93 85 87 722 729
728 723 724 72 709 734 735 715 714 727
Fatty acids fruit ripening lignin
glucosinolates more brassinosteroids flavonoids
pigments
New in eudicots
80 82 83 712 716 718 720 736
Alkaloids and more secondary metabolites
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CYP75 Family expansion in grapevine
Vitis
Populus
papaya
Arabidopsis
Genes
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CYP76 Family expansion in grapevine
Vitis
Populus
Arabidopsis
papaya
Genes
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CYP82 Family expansion in grapevine
Vitis
Populus
Arabidopsis
papaya
Genes
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Fungal cytochrome P450s
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CYP65
1384 named fungal CYPs
CYP52
CYP51
CYP61
329 families
60 of fungal P450 families have only 1 or 2
sequences.
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Zn(II)2Cys6 fungal specific transcription
factors Polyketide synthases (PKS) Nonribosomal
peptide synthases (NRPS) Transporters of the MFS
or ABC families (efflux pumps) Cytochrome
P450s Flavin monooxygenases Methyl, acetyl or
prenyl transferases dehydrogenases
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