Population structure and evolution of resistance to acetolactate synthase (ALS)‐inhibitors in Amaranthus tuberculatus in Italy
Open Access
- 25 February 2021
- journal article
- research article
- Published by Wiley in Pest Management Science
- Vol. 77 (6), 2971-2980
- https://doi.org/10.1002/ps.6336
Abstract
BACKGROUND Before 2010, Amaranthus tuberculatus (Moq.) J. D. Sauer was barely known to farmers and stakeholders in Italy. Since then, several populations resistant to acetolactate synthase (ALS)‐inhibiting herbicides have been collected. In most populations, a known target site resistance‐endowing mutation was found, a Trp to Leu substitution at position 574 of the ALS gene, but it was unclear whether they had evolved resistance independently or not. The aims of the work were (i) to elucidate the population structure of Italian ALS‐resistant A. tuberculatus populations, and (ii) to analyze the ALS haplotypes of the various populations to determine whether resistance arose multiple times independently. RESULTS In order to determine the population structure of eight A. tuberculatus populations, eight previously described microsatellite loci were used. Two ancestors were found: three populations derived from one, and five from the other. In the 4‐kb ALS region of the genome, including the 2‐kb coding region, 389 single nucleotide polymorphisms were found. In silico haplotype estimation was used to reconstruct the sequence of three distinct haplotypes carrying the Trp574Leu mutation. In addition, no mutation was found in 83% of plants of a single population. CONCLUSIONS (i) Resistance must have arisen independently at least three times; (ii) at least one population was already resistant to ALS inhibitors when introduced in Italy; (iii) a single haplotype with a Trp574Leu mutation was shared among six populations, probably because of broad seed dispersal; and (iv) one population likely evolved nontarget site ALS inhibitors resistance.Keywords
This publication has 43 references indexed in Scilit:
- A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEffFly, 2012
- A linear complexity phasing method for thousands of genomesNature Methods, 2011
- STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno methodConservation Genetics Resources, 2011
- The Sequence Alignment/Map format and SAMtoolsBioinformatics, 2009
- Fast and accurate short read alignment with Burrows–Wheeler transformBioinformatics, 2009
- A European biotype of Amaranthus retroflexus cross‐resistant to ALS inhibitors and response to alternative herbicidesWeed Research, 2007
- The Structure of Linkage Disequilibrium Around a Selective SweepGenetics, 2007
- Detecting the number of clusters of individuals using the software structure: a simulation studyMolecular Ecology, 2005
- FAST‐TRACK: Integrating QTL mapping and genome scans towards the characterization of candidate loci under parallel selection in the lake whitefish (Coregonus clupeaformis)Molecular Ecology, 2004
- Basic local alignment search toolJournal of Molecular Biology, 1990