Life through a cytochrome P450 lens David R. Nelson

University of Tennessee, Memphis

FUNGI

ANIMALS

PLANTS

PR

OTI

STS

ARCHAEA

BACTERIA287

2

3387

912

18

239

1384

• Plants

• Animals

• Fungi

• Bacteria

• Protists

• Archaea

Increases by Taxon

1455

593383

291

2910

Medicago truncatula

Carica papaya

Sel

agi

nella

mol

lend

orff

ii

Pinot noir

Daphnia pulex

Lauric acid

Camphor

terpineol

Linalool

CYP111A1CYP108A1CYP107A1 CYP107B1CYP101A1CYP102A1

CYP105A3

Pravastatin

CYP165A3

Vancomycin

CYP171A1 CYP177A1

RDX

Ethyl tert-butyl ether

CYP249A1 CYP167A1 CYP153A6

C6-C11 Alkanes

CYP129A2 CYP131A1 CYP131A2

3305 P450s from seawater + 519 named P450s = 3824 seqs.

Cluster with CD-HIT @ 90%

2211 clusters

Select one representative seq. from each cluster

Cluster with CD-HIT @ 60%

1143 clusters

Make seq. align. with Muscle

Filter out short sequences

566 sequence alignment

Make NJ tree

Select one representative seq. from each cluster

From Shibu Yooseph at JCVI

S

SS

oE

LB1

LB2

105/107

153108

Clan

Family

moss

rice

papayaArabidopsis

PopulusVitis

Chlamydomonas

Selaginella

CYP85 clan CYP72 clan

First CYP88 90, 707 seqs

Clan

Family

Chlamydomonasmoss

Selaginellarice

papayaArabidopsis

PopulusVitis

CYP71 clan

core eudicot CYPs

core angiosperm CYPs core land

plant CYPs Phenylpropanoid pathway

gibberellin pathway

51 97 710 74 86 94 704 73 78 98 701 703Land plant core

New in Selaginella

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

New in angiosperms

77 88 90 707 711

New in eudicots80 82 83 712 716 718 720 736

algaeSterols Carotenoids

Oxylipins Cutins C4H C3HGibberellin 1

Gibberellin 2, Brassinosteroids Abscissic acid

Pollen formation

Fatty acids fruit ripening lignin glucosinolates more brassinosteroids flavonoids pigments

Alkaloids and more secondary metabolites

CYP75 Family expansion in grapevine

papaya ArabidopsisPopulus

Vitis

Gen

es

CYP76 Family expansion in grapevine

papaya

Arabidopsis

Populus

VitisG

enes

CYP82 Family expansion in grapevine

papayaArabidopsis

Populus

Vitis

Gen

es

Fungal cytochrome P450s

60% of fungal P450 families have only 1 or 2 sequences.

CYP51

CYP52

CYP61

CYP65 1384 named fungal CYPs

329 families

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