Comparative genomic analysis of the odorant-binding protein family in 12 Drosophila genomes: purifying selection and birth-and-death evolution

Vieira, Filipe Garrett; Sánchez-Gracia, Alejandro; Rozas, Julio

doi:10.1186/gb-2007-8-11-r235

Cited by 185 publications

(255 citation statements)

References 99 publications

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“…Our present data help to fill that gap as the seven ant species have diverged from each other during the last 130 My. Furthermore, several studies have overlooked sequence evolution or have failed to detect positive selection in gene families involved in chemosensation Vieira et al, 2007;Gardiner et al, 2008;Sánchez-Gracia et al, 2009;Zhou et al, 2010). In contrast, our results highlight the rapid evolution and positive selection in the most recent duplicates of ant CSP genes.…”

Section: Discussioncontrasting

confidence: 53%

“…For this reason, BadiRate assumes less duplications and more losses than the actual gene tree of ants indicates. We therefore also estimated the birth and death rates using the formulae applied from Vieira et al (2007) (Supplementary Figure S1). The ancestral number in ants was assumed to be within the range of 8-11.…”

Section: Csp Evolution In Ants J Kulmuni Et Almentioning

confidence: 99%

“…First, we estimated the global l (the number of gene births and deaths per existing gene per million years) (L-GR-ML) and second, we estimated the birth (b) and death (d) rates separately (BDI-GR-ML). Furthermore, we used the formulae of Vieira et al(2007) to calculate birth and death rates from information on the inferred number of duplications and losses (that is, pseudogenization) within each branch of the ant species tree by adding each event separately in the summation. As our results show, the ant-specific expansions have mainly taken place separately within the lineages and the ancestral ants have had at least seven CSP genes corresponding to the inferred orthologous groups.…”

Section: Gene Gain and Loss In Csp Familymentioning

confidence: 99%

“…OBPs and CSPs belong to different gene families, but possibly have common evolutionary origin of 380-450 million years ago (Mya) . Several studies find that chemosensory gene families evolve under purifying selection and there is no or little indication of positive selection Vieira et al, 2007;Gardiner et al, 2008;Sánchez-Gracia et al, 2009;Zhou et al, 2010). Exceptions are the pea aphid OR and GR gene families, where the most recent expansions evolve under positive selection (Smadja et al, 2009) with ecologically based selection for host plant specialization as the possible driving force.…”

Section: Introductionmentioning

confidence: 99%

“…Among these are genes involved in immune defense, stress response, metabolism, cell signaling, reproduction and chemoreception (Demuth and Hahn, 2009). Genes underlying chemosensation have been studied in several insects (Nozawa and Nei, 2007;Vieira et al, 2007;Sánchez-Gracia et al, 2009;Smadja et al, 2009;Zhou et al, 2010;Vieira and Rozas, 2011). Within chemosensory gene families, relatively few genes can be recognized as orthologues shared by different insect orders, and the number of orthologous groups quickly decreases with increasing divergence time .…”

Section: Introductionmentioning

confidence: 99%

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Comparative genomics of chemosensory protein genes reveals rapid evolution and positive selection in ant-specific duplicates

2013

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Gene duplications can have a major role in adaptation, and gene families underlying chemosensation are particularly interesting due to their essential role in chemical recognition of mates, predators and food resources. Social insects add yet another dimension to the study of chemosensory genomics, as the key components of their social life rely on chemical communication. Still, chemosensory gene families are little studied in social insects. Here we annotated chemosensory protein (CSP) genes from seven ant genomes and studied their evolution. The number of functional CSP genes ranges from 11 to 21 depending on species, and the estimated rates of gene birth and death indicate high turnover of genes. Ant CSP genes include seven conservative orthologous groups present in all the ants, and a group of genes that has expanded independently in different ant lineages. Interestingly, the expanded group of genes has a differing mode of evolution from the orthologous groups. The expanded group shows rapid evolution as indicated by a high dN/dS (nonsynonymous to synonymous changes) ratio, several sites under positive selection and many pseudogenes, whereas the genes in the seven orthologous groups evolve slowly under purifying selection and include only one pseudogene. These results show that adaptive changes have played a role in ant CSP evolution. The expanded group of ant-specific genes is phylogenetically close to a conservative orthologous group CSP7, which includes genes known to be involved in ant nestmate recognition, raising an interesting possibility that the expanded CSPs function in ant chemical communication.

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Section: Discussioncontrasting

confidence: 53%

Section: Csp Evolution In Ants J Kulmuni Et Almentioning

confidence: 99%

Section: Gene Gain and Loss In Csp Familymentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Comparative genomics of chemosensory protein genes reveals rapid evolution and positive selection in ant-specific duplicates

2013

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Comparative Genomics of the Major Chemosensory Gene Families in Arthropods

Sánchez‐Gracia

Vieira

Almeida

et al. 2011

Encyclopedia of Life Sciences

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Chemoreception is the most important sense for the survival and reproduction of most animal species. In insects, the principal proteins involved in the recognition of chemical cues comprise moderately sized, multigene families. These families include (i) odorant‐binding (OBPs) and chemosensory (CSPs) proteins, which are involved in peripheral olfactory processing; (ii) the chemoreceptor super‐family, formed by the olfactory (OR) and gustatory (GR) receptors; and (iii) the ionotropic receptors (IR), a variant class of ionotropic glutamate receptors (iGluR). Recent comparative genomic analyses of fully sequenced arthropod genomes support the birth‐and‐death model as the major evolutionary mechanism in determining the chemosensory repertoire size, and provide evidence of adaptive changes fostered by ecological shifts that might influence the current size of chemosensory families. These studies also advocate for the origin of olfactory gene families with the evolution of terrestriality in insects. Key Concepts: The chemosensory system mediates the detection of food, predators and mates, eliciting feeding behaviours and innate sexual and reproductive responses. In arthropods, the most important proteins involved in the recognition of chemical cues comprise moderately sized multigene families. The chemosensory system of arthropods relies on transmembrane receptors (OR, GR and IR gene families) and small globular proteins (OBP and CSP families). The number of chemosensory genes is similar across the Drosophila genus, with little variation in the gene number among species. New OBP and CSP genes appear by gene duplication in extant chromosomal clusters, and diverge independently from each other. An unexpectedly high number of gene gains and losses occurred in the evolution of chemosensory families during the 40–60 Myr of divergence of the Drosophila genus. The chemosensory families in insects evolve under a birth‐and‐death process, with lineage‐specific family size expansions and contractions at large time scale. The selective constraints on chemosensory genes have varied over the evolution of the Drosophila genus, with some cases of positive selection. Random genomic drift, assisted by eventual adaptation processes, is the principal determinant of the chemosensory family size of arthropods.

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Plant Semiochemicals – Perception and Behavioural Responses by Insects

Reinecke

Hilker

2014

Annual Plant Reviews

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Comparative genomic analysis of the odorant-binding protein family in 12 Drosophila genomes: purifying selection and birth-and-death evolution

Abstract: The comparative analysis of the odorant binding protein family in 12 Drosophila genomes allowed the identification of 595 putative family member genes and revealed insights into the evolution of this family in these species.

Cited by 185 publications

References 99 publications

Comparative genomics of chemosensory protein genes reveals rapid evolution and positive selection in ant-specific duplicates

Comparative genomics of chemosensory protein genes reveals rapid evolution and positive selection in ant-specific duplicates

Comparative Genomics of the Major Chemosensory Gene Families in Arthropods

Plant Semiochemicals – Perception and Behavioural Responses by Insects

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