Using a hitchhiking weed, scientists from the Max Planck Institute for Developmental Biology in Tübingen reveal for the first time the mutation rate of a plant growing in the wild. They compared 100 historic and modern genomes of the tiny plant Arabidopsis to measure precisely the rate at which it evolves in nature. The oldest plant, preserved in a herbarium, was from 1863. At this time, the scientists estimate the species had already more than 200 years in the New World behind it. Two different methods gave the same result, that Arabidopsis had been introduced by Europeans who arrived on the US East Coast around the year 1600. It was almost certainly introduced there by chance, perhaps carried on the boots of Europeans, or mixed in with the seeds of edible plants.
The team focused on samples from North America, because they knew that one particular genetic family of Arabidopsis was very widespread, presenting an opportunity to observe newly-acquired mutations. The comparison of 100 complete genomes revealed 5000 new mutations, some of which could have given the plant an adaptive advantage as it colonized its new environment. The plant moved inland alongside human settlers, gradually diverging from the European ancestor from which it originated. Samples of the species along the same path today reveal increasingly deep and fast-growing roots, perhaps evidence that it adapted during its hitchhiking trip.
“Collections of invasive populations sampled from different times in history enable us to observe the ‘live’ process of evolution in action,” says Moises Exposito-Alonso, first author of the paper. They sequenced the genomes of 100 plants collected by botanists between 1863 and 2006. All samples from before 1990 came from museum collections of dried plants. The oldest dried plants, preserved in time 150 years ago, show how much they had evolved by that time. The youngest plants continued to change and evolve. By comparing genomes of plants that had diverged from a common ancestor for different amounts of time, the scientists calculated how many mutations the plant acquires a year.
(A) Sampling locations of herbarium (blue) and modern individuals (green). (B) Temporal distribution of samples (random vertical jitter for visualization purposes). (C) Linear regression of latitude and longitude as a function of collection year (p-value of the slope and Pearson correlation coefficient are indicated). PLOS Genetics, doi:10.1371/journal.pgen.1007155
Early colonization
This in turn enabled the team to deduce that the last common ancestor of the lineage must have lived at the end of the 16th or beginning of the 17th century. This coincides with the time that many people were arriving by boat from Europe, particularly the southern UK, the west coast of France, and the Netherlands. This was very surprising, since a previous estimate, which had not made use of genetic information from dried herbarium samples, suggested that the colonizing Arabidopsis plants had only arrived in the 19th century.
Arabidopsis is not a harmful weed, but the findings help reveal some of the fundamental evolutionary processes behind the ability of invasive species to colonize new environments. In particular, they unlock some of the secrets of the “genetic paradox of invasion.” This occurs when a colonizer with low genetic diversity is nevertheless surprisingly successful in a new environment.
To determine the effect of new mutations, the scientists grew some of the plants in the lab to identify any differences in growth. The fact that such differences were found suggests that some of the mutations that appeared during the past 400 years conferred an advantage during colonization. “We were very surprised, since scientific dogma suggests that evolution normally proceeds at a much slower pace,” said Hernán Burbano, one of the supervisors of this study. “Accurate evolutionary rates for plants and animals will be fundamental to reconstruct their past history and to predict the opportunity of novel advantageous traits to arise. Our results show that herbarium and animal specimens can be the source of a great new branch of genetics in the future,” Exposito says.
Reference: “The rate and potential relevance of new mutations in a colonizing plant lineage” by Moises Exposito-Alonso, Claude Becker, Verena J. Schuenemann, Ella Reiter, Claudia Setzer, Radka Slovak, Benjamin Brachi, Jörg Hagmann, Dominik G. Grimm, Jiahui Chen, Wolfgang Busch, Joy Bergelson, Rob W. Ness, Johannes Krause, Hernán A. Burbano and Detlef Weigel, 12 February 2018, PLOS Genetics.
DOI: 10.1371/journal.pgen.1007155
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