Mosquito Genomes Galore

Whole-genome sequences of 16 different mosquito species reveal rapid evolution and could inform malaria research.

By | November 27, 2014

Anopheles stephensiWIKIMEDIA, CDCTwo papers published today (November 27) in Science announce the completion and preliminary analyses of the genomic sequences of 16 species of mosquitoes, including those that are vectors for the malaria parasite. The sequences, which are around 200 million base pairs each, reveal that mosquitoes are rapidly evolving, exhibiting high degrees of gene gains, losses, shuffling, and even transmission between closely related species.

“Both papers provide really powerful information on the evolution of different malaria mosquito species,” wrote James Logan of the London School of Hygiene and Tropical Medicine in an e-mail to The Scientist. “Comparisons between the [species] are likely to reveal the reason why some mosquitoes are better at transmitting malaria than others, [which is] vital for the future control of malaria,” he added.

Each year, there are hundreds of millions of cases of malaria globally that cause hundreds of thousands of deaths. In 2002, as part of an ongoing effort to understand mosquito biology and ultimately reduce disease transmission, the genome sequence of Anopheles gambiae—the major malaria vector of sub-Saharan Africa—was published.

“Having one genome is a great start, but it’s not enough,” said Nora Besansky, the malaria vector researcher at the University of Notre Dame, Indiana, who led the latest sequencing effort. There are about 450 species of Anopheles mosquitoes and roughly 60 of them transmit malaria, but they are not all closely related, Besansky explained. Therefore, she said, “if our interest is in trying to control malaria by targeting the mosquito itself in some way, we need to understand what they [the malaria mosquitoes] all have in common.”

Ten years ago, Besansky and colleagues came up with a proposal to sequence what was then “a jaw-dropping eight species” of mosquito, she said. But over the last decade that number doubled as the team collected wild species donated by scientists around the globe as well as stock species kept at the Malaria Research and Reference Reagent Resource in Virginia.

The now complete 16 sequences “represent a huge amount of work and effort by a massive collection of individuals,” said Hilary Ranson, a medical entomologist at the Liverpool School of Tropical Medicine. “And the utility of the [data] will be vast.”

For one thing, “It will help extend malaria vector research out of Africa,” said mosquito researcher Steven Sinkins of Lancaster University. “The main burden of malaria transmission is in Africa, but there are also very important malaria vectors in Southeast Asia and South America,” he said. Even within Africa there are more than one vector species, he added, so sequencing these extra genomes was “very important.”

The 16 species represent 100 million years of evolution; preliminary computational comparisons of their genomes revealed “very rapid evolution,” said Besansky. “It is quite remarkable, the fast rate of structural rearrangements of chromosomes,” she added. And so is the rate of “births and deaths of gene families,” she said, which is apparently occurring five times faster than in fruit flies.

In the second paper, Besansky and colleagues examined A. gambiae and its closest relatives, representing approximately 2 million years of evolution. The group includes a further two important malaria vector species, but also “species that have no role in malaria transmission whatsoever,” said Besansky. From these data the team worked out the branching order of the species on the evolutionary tree. “The surprising finding was that the [malaria vectors] are on very distant branches,” said Besansky. Another surprise was the extent of introgression—or the swapping of genes via interspecies mating. The inference, Besansky said, is that it may not be common ancestry that relates malarial vectors but rather the exchange of genes. Introgression is yet “another means of rapid evolution,” she said, “and in this case, you don’t even have to wait for a new mutation to come along.”

Toward the goal of malaria control, these genomes are “only a starting point,” said Ranson, but as the genes for different traits in different species are discovered “they may help us narrow down and prioritize options for control strategies in different regions.”

 M.C. Fontaine et al., “Extensive introgression in a malaria vector species complex revealed by phylogenomics,” Science, doi:10.1126/science.1258524, 2014.

 D.E. Neafsey et al., “Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes,” Science, doi:10.1126/science.1258522, 2014.

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Avatar of: James V. Kohl

James V. Kohl

Posts: 417

December 1, 2014

Both papers provide really powerful information on the evolution of different malaria mosquito species...

In the context of everything known about Feedback loops that link odor and pheromone signaling with reproduction, these papers can be combined with claims made in Multiple haplotype-resolved genomes reveal population patterns of gene and protein diplotypes.

One need only remove the claims about mutations, which Fontaine et al and Neafsey et al did, and replace them with accurate representations of what nutrient-dependent RNA-directed DNA methylation and RNA-mediated events do in the context of amino acid substitutions that differentiate all cell types in all individuals of all species via their pheromone-controlled physiology of reproduction. See for examples: Nutrient-dependent/pheromone-controlled adaptive evolution: a model.

For information about biologically-based cause and effect in mosquitoes, see: Amino Acid Residues Contributing to Function of the Heteromeric Insect Olfactory Receptor Complex. Additional published works from Leslie Vosshall's group also help others to eliminate mutations from the context of evolved biodiversity via information on the amino acids substitutions that differentiate cell types.

The conserved molecular mechanisms of cell type differentiation are bio-physically constrained by the chemistry of protein folding, which ensures that some nutrients lead to amino acid substitutions that stabilize the DNA in organized genomes and protect organized genomes against nutrient stress and social stresse linked directly from ecological variation.

Nutrient stress and social stress have always been linked to mutations and pathology. We now see why they cannot be linked to increasing organismal complexity in any species. The mutations perturb protein folding.

For constrast, amino acid substitutions stablize protein folding, which is how morphological and behavioral phenotypes change much more quickly than could ever be predicted in the context of evolutonary theory.

See also: orco mutant mosquitoes lose strong preference for humans and are not repelled by volatile DEET my synopsis: Mutations are not beneficial.

Evolution of mosquito preference for humans linked to an odorant receptor  my synopsis: Ecological variation is epigenetically linked by feedback loops to ecological adaptations via amino acid substitutions linked to the physical landscape of DNA.

In the absence of experimental evidence that might otherwise link mutations to increasing organismal complexity via evolutionary events that have not been described, it is time to accept the obvious fact that Ecological variation is the raw material by which natural selection can drive evolutionary divergence 1–4. Isn't it?

If natural selection did not epigenetically link ecological variation directly to ecological adaptations via conserved molecular mechanisms in species from microbes to man, there would be no biodiversity. Would there?

See also: Environmental epigenetic inheritance through gametes and implications for human reproduction

Excerpt:  "Extensive molecular evidence suggests that epigenetic information carriers including DNA methylation, non-coding RNAs and chromatin proteins in gametes play important roles in the transmission of phenotypes from parents to offspring."

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