Literature DB >> 36003260

The P450 genes of the cat flea, Ctenocephalides felis: a CYPome in flux.

René Feyereisen1,2.   

Abstract

The genome of the cat flea, an ectoparasite of major veterinary importance and the first representative of the Siphonaptera, is highly unusual among arthropod genomes in showing a variable size and a very large number of gene duplications (Driscoll et al., 2020). The cat flea is the target of several classes of insecticides, justifying the description of its CYPome, the complement of P450s that are an important family of detoxification enzymes. 103 P450 genes were annotated on the nine chromosomes, with an additional 12 genes on small, extrachromosomal scaffolds. Only 34 genes were found as single sequences, with 47 duplicated two to four-fold. This included duplication of genes that are mostly single copy P450 genes in other arthropods. Large clusters of mitochondrial clan P450s were observed, resulting in a CYP12 bloom within this clan to 34 genes, a number of mitochondrial P450s not seen in other animals so far. The variable geometry of the cat flea CYPome poses a challenge to the study of P450 function in this species, and raises the question of the underlying causes of single copy control versus multicopy licence of P450 genes.
© 2022 The Author(s). Published by Elsevier B.V.

Entities:  

Keywords:  Siphonaptera; cat flea; gene duplication; mitochondrial P450

Year:  2022        PMID: 36003260      PMCID: PMC9387431          DOI: 10.1016/j.cris.2022.100032

Source DB:  PubMed          Journal:  Curr Res Insect Sci        ISSN: 2666-5158


Introduction

The cat flea Ctenocephalides felis (Siphonaptera, Pulicidae) is a worldwide obligate ectoparasite of cats and dogs as well as wildlife (Rust and Dryden, 1997; Rust, 2016). It is a carrier of a number of pathogens, from Rickettsia to Bartonella, and intermediate host of parasites such as tapeworms. As blood feeder, the cat flea is also responsible for allergic dermatitis. A well known, related member of the Order Siphonaptera is the Oriental rat flea, vector of the bubonic plague bacterium Yersinia pestis. The medical and veterinary importance of fleas, and the cat flea in particular, has made the protection of household pets a major industry. With few viable alternatives (Rust, 2020), reliance on chemical control is predominant, both oral administration and topical (“spot-on”) treatment of the flea host with a number of active ingredients from several classes. Challenges in the toxicology of flea control chemicals are primarily the prevention of toxicity to the hosts (cat or dog) and to their owners (particularly children). Selective toxicity is mainly achieved by maximizing the differential sensitivity of the insecticidal target in the flea with that in the vertebrates, when the target is in the nervous system (Gassel et al., 2014). Even for highly selective agents whose insecticidal target is absent from vertebrates (such as the insect growth regulators methoprene or lufenuron), potential toxic side effects need to be avoided (Gaens et al., 2019). Efficacy at recommended doses therefore depends on a delicate balance between bioavailability of the insecticide and its metabolic inactivation. Efficacy can be compromised by resistance, a major problem facing chemical control of arthropods (Feyereisen et al., 2015; Nauen et al., 2022). Relatively few (28) cases of resistance have been reported for the cat flea (Mota-Sanchez and Wise, 2021). Target site resistance (kdr and Rdl) predominate, but metabolic resistance has also been inferred in some cases. For instance, synergism by PBO reduced malathion resistance (Bossard et al., 1998), an indirect sign of cytochrome P450 involvement. No metabolic resistance to isoxazolines such as fluralaner has been reported to date. The metabolism of flea control agents is therefore an important aspect to understand their efficacy and to manage resistance. Yet xenobiotic metabolism in fleas is relatively understudied, but certainly relies on classical processes such as phase I, the introduction of functional groups and phase II, conjugation. The cat flea genome (Driscoll et al., 2020) now makes it possible to analyze in detail the cytochrome P450 genes in this species that encode the principal phase I enzymes of oxidative metabolism. Here, the full complement of P450 genes (the CYPome) of the cat flea is described, to serve as basis for future research on toxicology of this important pest. A second goal of this study relates to the evolution of the P450 gene family. It is one of the very large families of genes in eukaryotic genomes (Nelson, 2018). The enzymes they encode are mostly characterized by their monooxygenase function, activating molecular oxygen to insert one atom in a substrate while reducing the other to water. This general scheme translates into a great variety of chemical reactions much beyond simple hydroxylation (Guengerich and Munro, 2013). However, the nature of the substrate, from hormone to pesticide or environmental toxicant, brings P450 enzymes in multiple pathways subject to widely different evolutionary constraints and selection regimes. CYPome composition is generally characterized by many genes in few CYP families, and few genes in many CYP families (Sezutsu et al., 2013; Dermauw et al., 2020). A close look at a genome characterized by a high proportion of gene duplicates (“genome in flux”) (Driscoll et al., 2020) might reveal if this pattern of duplication is random or restricted to some P450 subfamilies or genes. Furthermore, the CYPome of the cat flea may inform on the relationship between host use and detoxification enzyme complements (Rane et al., 2019). Here, the P450 genes of the cat flea are presented. Reflecting the whole genome, the CYPome comprises many gene duplicates. Furthermore, the cat flea CYPome shows a great expansion of the mitochondrial clan P450s that has not been observed previously in animals.

Materials and Methods

Annotation of P450 genes

The cat flea Ctenocephalides felis genome (QVAO01, GCA_003426905.1) was searched by blast with representative P450 sequences from Diptera and Coleoptera (Dermauw et al., 2020), and matched when appropriate with RefSeq models (Annotation Release 100). This resulted in 171 annotations of genes, pseudogenes, loose exons and gene fragments (Supplementary Table 1). Although 40 gene models from RefSeq appeared to be correct, there were 10 fusions of two genes into one gene model, and 2 fusions of three. There were also 2 genes split into two halves, and 17 RefSeq gene models that corresponded to partial pseudogenes (see Supplementary Table 1). The high frequency of frameshifts caused by single nucleotide indels was an additional annotation problem, and evidence from transcripts was not abundant enough to reliably correct all these frameshifts. It was therefore difficult to decide whether these frameshifts were errors from PacBio sequencing (only 25x coverage), or a biological reality of this peculiar genome, with many duplications resulting in some genes being in the process of pseudogenization. The CYPome presented here includes 23 (near) full length sequences with at least one frameshift, of which six were designated with the P (pseudogene) suffix because of lacking transcript evidence, three as a result of short genomic gaps, and one as a result of a premature stop codon (Supplementary Table 1).

Naming P450 sequences and P450 phylogeny

Full length sequences were given names following the official P450 nomenclature. While this was straightforward for 34 unique sequences represented by a single gene, the remaining 81 sequences consisted of two, three or four duplicates of an additional 34 unique sequences. These sequences were on average 98.3 ± 1.5% identical and all were >95% identical. Driscoll et al. (2020) considered genes with >90% identity as duplicates, so the criteria used in this study were more stringent. Such duplicate sequences were given a,b,c,d suffixes after the gene number. Sequences were aligned by MAFFT (Katoh et al., 2019) and maximum likelihood phylogeny constructed by iq-Tree (Minh et al., 2020). The trees were drawn by FigTree (http://tree.bio.ed.ac.uk/).

Results

P450 sequences

The cat flea genome is characterized as “plastic” with rampant gene duplication (Driscoll et al., 2020). This was abundantly apparent in this annotation of the CYPome, the first one from the order Siphonaptera. 115 P450 genes were annotated, from a set of 68 unique CYP sequences, of which only half were present as single copy genes. For the remainder, 25 were duplicated once, 5 present in 3 copies and 4 present in 4 copies (Table 1 and Figure 1). 103 of the 115 genes were distributed on the “big 9 scaffolds” which represent the nine core chromosomes. Mostly tandem duplications, with evidence for segmental duplications covering several genes were observed (Supplementary Table 1). Twelve additional P450 genes were distributed on seven smaller scaffolds. The precise nature of these smaller scaffolds which map to homologous regions on the assembled chromosomes is unclear. All 12 P450 genes (and many gene fragments) on these small scaffolds were duplicates of genes found on the assembled chromosomes. As the genome sequence was obtained from pooled females, and as no two cat fleas have the same genome size (Driscoll et al., 2020), these smaller scaffolds may represent copy number variation (CNV), or optional genome complements.
Table 1

CYP numbers by clan in the cat flea. Total CYP genes is the number of genes on chromosomes and on the small scaffolds. This total consists of unique sequences represented either by single genes or by duplicated genes, where duplicates are > 95% identical in sequence to each other.

CYP2 clanCYP3 clanCYP4 clanmitochondrial clantotal
CYP genes on “big 9” scaffolds (chromosomes)11471332103
CYP genes on small scaffolds0100212
total CYP genes11571334115
unique CYP sequences102792268
as single genes91051034
as duplicated genes (2-4x)13041247
gene fragments1315171055
Figure 1

Duplicated P450 genes in the cat flea. Sequences that are >95% identical were considered to be duplicates.

CYP numbers by clan in the cat flea. Total CYP genes is the number of genes on chromosomes and on the small scaffolds. This total consists of unique sequences represented either by single genes or by duplicated genes, where duplicates are > 95% identical in sequence to each other. Duplicated P450 genes in the cat flea. Sequences that are >95% identical were considered to be duplicates.

Distribution into CYP families

The P450 sequences were distributed in the four major insect CYP clans (Dermauw et al., 2020) and 22 families (including 2 new families in the CYP3 clan). Notably, the cat flea CYPome had a particularly large number of mitochondrial clan P450 with 34 sequences and just 13 CYP4 clan P450s. The pattern of P450 gene duplications in the cat flea is consistent with that observed at the whole genome level. The proportion of duplicated single copy genes at the genome level (38%) (Driscoll et al., 2020) is the same as that observed for the CYPome (47 / 115). At the genome level, these gene duplications represent CNV resulting from unequal crossing over rather than artefacts from misassembled allelic variants. This is also shown for the CYPome where 55 truncated genes and loose exons were annotated. However, the distribution of these gene fragments among CYP clans was uneven, with a disproportionately high number of gene fragments for the two smaller CYP clans (CYP2 and CYP4 clans), and fewer for the larger clans with higher number of full length duplicates (CYP3 and MITO clans). Arthropod CYPomes generally consist of many families with few genes, and few families with many genes. The many families with few genes often fall into conserved orthologous groups. In Holometabola (Dermauw et al., 2020), these consist of just a dozen P450 genes, including those involved in ecdysteroid metabolism. These genes are all conserved in the cat flea, but several are duplicated: in the mitochondrial clan, CYP314A1 and CYP315A1 are both tandemly duplicated (with also a CYP315A1 pseudogene), while CYP302A1 has one chromosomal copy and one extrachromosomal copy (Figure 2). In the CYP4 clan, both types of CYP4G genes (Feyereisen, 2020) are duplicated, so that the only single copy, conserved orthologs are in CYP2 clan, CYP18A1, CYP306A1, CYP303A1, CYP15A1, CYP307A1 and B1, and a CYP305, as well as the mitochondrial clan CYP49A1 and 301A1.
Figure 2

Maximum likelihood phylogeny of cat flea P450s. The four CYP clans are marked in blue (CYP2 clan), green (CYP3 clan), orange (CYP4 clan) and red (mitochondrial clan). P450s marked with an asterisk * are found on small scaffolds rather than on the chromosomes (big 9 scaffolds).

Maximum likelihood phylogeny of cat flea P450s. The four CYP clans are marked in blue (CYP2 clan), green (CYP3 clan), orange (CYP4 clan) and red (mitochondrial clan). P450s marked with an asterisk * are found on small scaffolds rather than on the chromosomes (big 9 scaffolds). On the other hand, the few (sub)families with many genes are also represented, such as the CYP9FH, CYP6WN and CYP6WN which show notable blooms. The mitochondrial clan CYP12 family has 25 members in the cat flea, many more than e.g. Anopheles gambiae with just four (Ranson et al., 2002). Figure 3 shows the phylogenetic relationships of mitochondrial clan sequences from two Coleoptera, two Lepidoptera and two Diptera, as well as the cat flea and illustrates this CYP12 bloom as well as the sets of conserved orthologs in the other families.
Figure 3

Maximum likelihood tree of mitochondrial clan P450s. The cat flea mitochondrial clan P450s are shown along with those from two Diptera (Drosophila melanogaster and Anopheles gambiae), two Lepidoptera (Bombyx mori and Plutella xylostella) as well as two Coleoptera (Tribolium castaneum and Nicrophorus vespilloides). CYP18 sequences (CYP2 clan) are shown as outgroup. The cat flea sequences are from this work, the others are taken from Dermauw et al. (2020).

Maximum likelihood tree of mitochondrial clan P450s. The cat flea mitochondrial clan P450s are shown along with those from two Diptera (Drosophila melanogaster and Anopheles gambiae), two Lepidoptera (Bombyx mori and Plutella xylostella) as well as two Coleoptera (Tribolium castaneum and Nicrophorus vespilloides). CYP18 sequences (CYP2 clan) are shown as outgroup. The cat flea sequences are from this work, the others are taken from Dermauw et al. (2020).

CYP gene clusters

Gene duplications are well known to be at the origin of CYP gene clusters in arthropods (Feyereisen, 2012; Sezutsu et al, 2013). The cat flea genome is therefore not surprisingly harbouring many CYP gene clusters. Figure 4 illustrates two such clusters. One, on big scaffold 8 shows a small cluster of CYP315A1 genes, usually a single copy gene in arthropods (Dermauw et al., 2020). Instead, in the cat flee, there is a tandem duplication of CYP315A1 along with another gene (loc 3035/3038) within 14 kb, with one of the copies of CYP315A1 pseudogenized (stop codon and frameshift in exon 1). There is a second duplication with inversion of the CYP315A1 gene. The two CYP315A1 genes differ by just seven amino acids. The other cluster, on big scaffold 9, shows seven CYP9FH genes within 410 kb. It seems to have resulted from a segmental duplication and inversion of three genes, with subsequent duplication of one gene. This gene, CYP9FH3 is 93% identical to the adjoining CYP9FH4b gene. Supplementary Table 1 shows several more clusters, often containing loose exons or partial genes.
Figure 4

Clusters of CYP genes. Top: CYP315A1 cluster on scaffold 8; bottom: CYP9FH cluster on scaffold 9. Supplementary Table 1 gives the coordinates of more clusters and tandem duplications of CYP genes.

Clusters of CYP genes. Top: CYP315A1 cluster on scaffold 8; bottom: CYP9FH cluster on scaffold 9. Supplementary Table 1 gives the coordinates of more clusters and tandem duplications of CYP genes.

Discussion

CYPome size

CYPome sizes as estimated from automated or manual annotations are definite numbers, attempting to represent the reality of a “type” genome (Rane et al., 2019; Dermauw et al., 2020). The inclusion of pseudogenes, gene fragments, or just the use of P450 domain counts (e.g. from Interpro) can bias CYPome size from one study to another and criteria should be well defined before comparisons can be made (Dermauw et al., 2020, Vertacnik et al., 2021). CYPome size is subject to change when the genome assembly improves, or when several genomes of the same species are compared. In that case, changes are a result of gene copy number variation (CNV) in that species. CNV is often an intermediate step (Innan and Kondrashov, 2010) in the gene duplication process observed when comparing sister species. Recently duplicated genes are often found in tandem and can be identical or differing by one or a few residues, e.g. CYP6B4 and CYP6B5 in Papilio glaucus (Hung et al., 1996) or CYP6AF1 and CYP6AF2 in Anopheles gambiae (Ranson et al., 2002). CNV in insect CYPomes is not well documented yet, variable copy number of CYP6G1 (Schmidt et al., 2010) and CYP6CY3 (Bass et al., 2013) being good examples of CNV associated with insecticide resistance. Indeed, the study of resistance is now providing more examples of P450 gene CNV and gene amplification (Nauen et al., 2022). The CYPome size of the cat flea is an extreme example of this ambiguity of assigning a precise number to the CYPome size. In part, this may be due to sub-optimal sequencing quality, shown by a relatively high number of single frameshifts, some that can be corrected with the help of transcript sequences. This sub-optimal quality of sequencing probably translates in a sub-optimal assembly as well, and future studies may resolve such deficiencies, as they have, indeed, with sequential improvements of genomes such as Drosophila over the years. In greater part, however, the number of CYP genes in the cat flea is ambiguous because the genomes of Siphonaptera appear to be plastic, with a core of nine chromosomes covering 654 Mb in the cat flea, and another 120 Mb being dispersed in unassembled small scaffolds (Driscoll et al., 2020). Even on the nine assembled chromosomes (big 9 scaffolds), there is a great number of almost identical copies of P450 genes, probably reflecting active, present CNV, caught as a snapshot as it were of the genomes of the pooled females that were sequenced. Yet, the genome assemblies of other insects that were obtained from pooled individuals do not show such high numbers of nearly identical sequences (i.e. recent CNV) nor so many gene fragments and pseudogenes (i.e. ongoing selection). The cat flea CYPome is therefore exceptional, reflecting the dynamic nature of the genome as a whole. Such genomic plasticity has also been observed in the rotifer Brachionus asplanchnoidis, with an extreme (2-fold) variation in genome size (Stelzer et al., 2021). However, in that case, the variation is due to satellite DNA rather than active coding genes. Perhaps a closer analog would be in fungi. The plant pathogenic Nectria haematococca carries three “optional” chromosomes (conditionally-dispensable supernumerary chromosomes) enriched with duplicated genes (Coleman et al., 2009), accounting for variation between isolates, and perhaps adaptation to diverse ecological niches.

CYPome size and life history traits

With 103 (chromosomal) CYP genes, the cat flea as obligate ectoparasite does not have a reduced CYPome size when compared to free living insects in sister clades (Diptera and Lepidoptera) for which CYPomes have been annotated (Rane et al., 2019; Dermauw et al. 2020). Other arthropods feeding exclusively on blood have CYPomes sizes ranging from 36 (Pediculus humanus), to 199 (Ixodes scapularis) (Table 2). Hasty conclusions about a possible relation between parasitic lifestyle and CYPome size are therefore premature.
Table 2

CYPome size and life history traits of arthropod ectoparasites. Generalist indicates more than one host species documented, spec ialist indicates a single known host species. CYPome sizes may to some extent depend on the criteria used by the authors of the studies.

speciesCYPome sizereferencehost species specialist /generalistlarval feedingadult feeding (female/male)
Ctenocephalides felis103this workgeneralistbloodblood
Glossina sp.62-82Rane et al., 2019generalistmaternal “milk”blood
Stomoxys calcitrans202Rane et al., 2019generalistorganic matterblood
Lutzomyia longipalpis100Rane et al., 2019generalistorganic matterblood & plant sugars / plant sugars
Phlebotomus papatasi94Rane et al., 2019generalistorganic matterblood & plant sugars / plant sugars
Philornis downsi102Romine et al., 2021generalistorganic matter & blood ?blood
Cimex lectularius57Dermauw et al., 2020generalistbloodblood
Rhodnius prolixus117Rane et al., 2019generalistbloodblood
Pediculus humanus36Dermauw et al., 2020specialistbloodblood
Lepeophteirus salmonis21Humble et al., 2019generalistskin & bloodskin & blood
Varroa destructor26Vlogiannitis et al., 2021specialisthemolymphhemolymph
Dermanyssus gallinae74this workgeneralistbloodblood
Ixodes scapularis199Dermauw et al., 2020generalistbloodblood
CYPome size and life history traits of arthropod ectoparasites. Generalist indicates more than one host species documented, spec ialist indicates a single known host species. CYPome sizes may to some extent depend on the criteria used by the authors of the studies.

CYP gene CNV and duplications

The great number of very closely related sequences seen in the CYPome from the cat flea genome assembly from pooled individuals makes the distinction between interindividual CNV and species-wide gene duplication semantically ambiguous. It is commonly observed that single genes that show no loss or duplications between closely related species, i.e. “stable” genes, are mostly those encoding P450 enzymes with essential physiological function. This is the case for vertebrates (Thomas, 2007) and for 12 Drosophila species (Good et al., 2014). The way this stability is measured, by reference to a common ancestor, is however relative to the placement of that ancestor, as shown over the scale of the arthropod lineage (Dermauw et al., 2020). The association of gene essentiality with gene conservation or phylogenetic stability is intuitively attractive. Yet the two concepts are not fully congruent as shown by the genome-wide study of Waterhouse et al. (2011) in fungi, vertebrates and arthropods. They suggested that the "quantitative distinction between genes with known essential functions and those without is substantially less prominent than the distinction between single-copy constrained genes and those with a multicopy license.” Relatively little is known about which P450 genes have essential functions in insects (and which have not). P450s involved in hormone metabolism or cuticular hydrocarbon biosynthesis are thought to be essential. Yet gene essentiality is probably not a “static and binary property” (Rancati et al., 2018), and is measured by a variety of criteria. On the other hand, single copy control and multicopy licence can be measured by more objective criteria once an evolutionary timescale is defined (see above). This was done elegantly for the timescale of the 12 Drosophila radiation (Good et al., 2014). The very high proportion of recently duplicated / copy number variable CYP genes in the cat flea therefore offers the opportunity to identify genes under single copy control and multicopy license. Can this then be correlated with gene essentiality ? The P450s known in Bombyx mori , Anopheles gambiae and Drosophila (and thus presumably in the cat flea as well) to catalyze various steps in ecdysteroid synthesis (CYP307, 306, 302, 315, 314) and inactivation (CYP18) do not fall clearly in the single copy control (or “stable”) category: three of them are duplicated (CYP302, 315 and 314, and with a full length pseudogene for CYP315), while they are “stable” in the Drosophila lineage (Good et al., 2014). Conversely CYP307, unstable in Drosophila, has only single copies of the 307A and 307B genes found in the holometabolous ancestor (Sezutsu et al., 2013). It may be relevant that the CYP306A1 and CYP18A1 genes are under single copy control, as they are the product of an ancient gene duplication (basal to Mandibulata), maintained in close synteny (only 5 kb apart in the cat flea), and play opposing roles in determining the ecdysteroid titer (Dermauw et al., 2020). These genes may therefore remain singletons because dosage imbalance would be deleterious and lead to developmental defects. The multicopy license of the CYP302, 315 and 314 genes is not easy to explain. All higher insects (Neoptera) studied so far have at least one CYP4G gene essential for cuticular hydrocarbon biosynthesis and lethal when knocked out. There are two copies each of the CYP4G1- and CYP4G15-type genes as well as ten gene fragments in the cat flea. The CYP4G subfamily is notoriously “unstable” in insects, with a revolving door pattern of gene birth and death (Feyereisen, 2020) although they are stable in the Drosophila lineage (Good et al., 2014). Among the genes generally considered non-essential, or with “accessory functions associated with unstable environmental interactions” (Thomas, 2007), while the majority of genes are under multicopy license, some in the CYP3 and CYP4 clans are not. With unequal crossing over as major mechanism of gene duplication, the process leads to a variable size of the duplicated (and lost) chromosomal segment, leading to the duplication of more than one gene (e.g. Figure 4), or the generation of gene fragments. The CYP gene fragments in the cat flea are not evenly distributed among the four CYP clans, with the CYP2 and CYP4 clans having proportionally more gene fragments than the CYP3 and mitochondrial clans, even though they are the two clans with the lowest number of genes. These observations about which genes are duplicated and which are not leaves an overall picture that does not support a strong link between essentiality and stability. While selection would primarily determine essentiality, the proximal cause(s) of copy number control probably include factors other than selection. Moreover, the fact that the duplications in the CYPome closely mirror what is observed at the whole proteome level (Driscoll et al., 2020) points to an idiosyncrasy of the cat flea genome, and possibly that of other Pulicidae. Of course, a better knowledge of the actual function of each P450 would allow a finer analysis.

Toxicological relevance

P450s play an important role in insecticide metabolism and resistance (Nauen et al., 2022). While currently there is nothing known about the precise function of any cat flea P450 beyond presumptions that are based on conserved orthology, a few points merit attention. In the sister clades to Siphonaptera, Diptera and Lepidoptera, many studies point to members of the CYP3 clan as key players in insecticide metabolism and resistance (Vontas et al., 2020; Katsavou et al., 2022). However, members of the CYP2 and mito clans have also been shown to metabolize xenobiotics (Shi et al., 2022). The high number of closely related sequences in the cat flea, and the probable variability in numbers between populations, perhaps even individuals, will make it difficult to assign insecticide metabolism to a definite gene, and, for resistance, make the design of molecular probes for overexpression or amplification very difficult. The proliferation of mitochondrial clan P450s of the CYP12 family is particularly noteworthy. In the house fly, CYP12A1 is constitutively overexpressed in a diazinon-resistant strain, and it metabolizes diazinon, cyclodienes and a variety of xenobiotics (Guzov et al. 1998). In Drosophila, CYP12A4 overexpression confers lufenuron resistance (Bogwitz et al., 2005). Conversely, CYP12A5 is responsible for the bioactivation of nitenpyram (Harrop et al., 2018). CYP12D1, a recently duplicated gene of Drosophila, is commonly observed in transcriptomic surveys to be associated with xenobiotic resistance, and its transgenic overexpression confers resistance to DDT and dicyclanil (Daborn et al., 2007). The mitochondrial clan CYP353D1 of Laodelphax striatellus metabolizes buprofezin and imidacloprid (Elzaki et al., 2017a; Elzaki et al., 2017b). Because of the focus on CYP3 clan P450s in studies of resistance or adaptation to host plants in Diptera and Lepidoptera, the toxicological relevance of insect mitochondrial P450s is often overlooked. Recent work on Helicoverpa armigera (Shi et al., 2022) also points to the capacity of five mitochondrial clan P450s to metabolize xenobiotics.

Conclusion

Resistance, and in particular metabolic resistance, is currently not a major problem in the cat flea (Rust, 2016), with control failures mainly attributable to application problems. But resistance is always “around the corner”, and in the case of P450-dependent detoxification (or activation), the variable geometry of the cat flea CYPome may prove to hinder identification of the responsible gene. In turn, this will delay the development of molecular diagnostics. These are more easily deployed in the case of target site resistance based on point mutations in known targets. The very large number of closely related sequences that point to high CNV and rate of gene duplication make the cat flea CYPome a standout case for arthropods, and possibly animals in general. The mitochondrial clan P450s as the second largest clan after the CYP3 clan is unprecedented and calls for greater attention to the functions of these P450 enzymes.

Data availability

The full CYPome annotation of genes, pseudogenes and gene fragments is provided in Supplementary Table 1, and a FASTA format file of all full length sequences is provided in Supplementary File 1.

Credit Author Statement

René Feyereisen: Conceptualization, Methodology, Software, Validation, Formal analysis, Investigation, Resources, Overall fun, Data Curation, Writing - Original Draft, Writing - Review & Editing Visualization, Supervision, Project administration, Funding acquisition.

Funding

This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors.

Declaration of Competing Interest

The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
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Journal:  Science       Date:  2002-10-04       Impact factor: 47.728

10.  The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion.

Authors:  Jeffrey J Coleman; Steve D Rounsley; Marianela Rodriguez-Carres; Alan Kuo; Catherine C Wasmann; Jane Grimwood; Jeremy Schmutz; Masatoki Taga; Gerard J White; Shiguo Zhou; David C Schwartz; Michael Freitag; Li-Jun Ma; Etienne G J Danchin; Bernard Henrissat; Pedro M Coutinho; David R Nelson; Dave Straney; Carolyn A Napoli; Bridget M Barker; Michael Gribskov; Martijn Rep; Scott Kroken; István Molnár; Christopher Rensing; John C Kennell; Jorge Zamora; Mark L Farman; Eric U Selker; Asaf Salamov; Harris Shapiro; Jasmyn Pangilinan; Erika Lindquist; Casey Lamers; Igor V Grigoriev; David M Geiser; Sarah F Covert; Esteban Temporini; Hans D Vanetten
Journal:  PLoS Genet       Date:  2009-08-28       Impact factor: 5.917

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