Utilizing next-generation sequencing to study homeologous polymorphisms and herbicide-resistance-endowing mutations in<i>Poa annua</i>acetolactate synthase genes

Chen, Shu; McElroy, J. Scott; Flessner, Michael L.; Dane, Fenny

doi:10.1002/ps.3897

Cited by 8 publications

(5 citation statements)

References 41 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In the current study, we were able to detect two distinct gene homeologs encoding for ALS proteins (ALSa (KT346395) and ALSb (KT346396)) with a coding sequence identity of 96.2 and 98.0 % (Supplementary Information, Figure S2). When comparing our sequences to the recently published transcript sequence assemblies for Poa supina and Poa infirma (Chen et al 2015 ), it was found that ALSa originated from Poa supina and ALSb originated from Poa infirma . Heterozygosity was detected for both ALS genes within our POAAN-R3 population with individual plants having two different expressed alleles of ALSa and ALSb, respectively.…”

Section: Resultsmentioning

confidence: 82%

A new amino acid substitution (Ala-205-Phe) in acetolactate synthase (ALS) confers broad spectrum resistance to ALS-inhibiting herbicides

Brosnan

Vargas

Breeden

et al. 2015

Planta

View full text Add to dashboard Cite

Main ConclusionThis is a first report of an Ala-205-Phe substitution in acetolactate synthase conferring resistance to imidazolinone, sulfonylurea, triazolopyrimidines, sulfonylamino-carbonyl-triazolinones, and pyrimidinyl (thio) benzoate herbicides.Resistance to acetolactate synthase (ALS) and photosystem II inhibiting herbicides was confirmed in a population of allotetraploid annual bluegrass (Poa annua L.; POAAN-R3) selected from golf course turf in Tennessee. Genetic sequencing revealed that seven of eight POAAN-R3 plants had a point mutation in the psbA gene resulting in a known Ser-264-Gly substitution on the D1 protein. Whole plant testing confirmed that this substitution conferred resistance to simazine in POAAN-R3. Two homeologous forms of the ALS gene (ALSa and ALSb) were detected and expressed in all POAAN-R3 plants sequenced. The seven plants possessing the Ser-264-Gly mutation conferring resistance to simazine also had a homozygous Ala-205-Phe substitution on ALSb, caused by two nucleic acid substitutions in one codon. In vitro ALS activity assays with recombinant protein and whole plant testing confirmed that this Ala-205-Phe substitution conferred resistance to imidazolinone, sulfonylurea, triazolopyrimidines, sulfonylamino-carbonyl- triazolinones, and pyrimidinyl (thio) benzoate herbicides. This is the first report of Ala-205-Phe mutation conferring wide spectrum resistance to ALS inhibiting herbicides.Electronic supplementary materialThe online version of this article (doi:10.1007/s00425-015-2399-9) contains supplementary material, which is available to authorized users.

show abstract

Section: Resultsmentioning

confidence: 82%

A new amino acid substitution (Ala-205-Phe) in acetolactate synthase (ALS) confers broad spectrum resistance to ALS-inhibiting herbicides

Brosnan

Vargas

Breeden

et al. 2015

Planta

View full text Add to dashboard Cite

show abstract

“…Recent phylogenetic analyses of Poa species showed that different amplicons of nuclear genes ( trx , CDO504, and ribosomal ITS) from P. annua were classified into two distinct clusters with P. infirma and P. supina (Soreng et al, 2010; Mao and Huff, 2012). Also, in our recent work, two homeologs of acetolactate synthase (ALS) gene were amplified from P. annua using two sets of homeolog‐specific primers and grouped with P. infirma or P. supina ALS genes (Chen et al, 2015b). Two distinct clusters in P. annua ALS sequences provides further evidence that P. annua is not autotetraploid.…”

Section: Resultsmentioning

confidence: 99%

Transcriptome Assembly and Comparison of an Allotetraploid Weed Species, Annual Bluegrass, with its Two Diploid Progenitor Species, Poa supina Schrad and Poa infirma Kunth

et al. 2016

Self Cite

View full text Add to dashboard Cite

Annual bluegrass (Poa annua L.) is one of the most widespread weed species in this world. As a young allotetraploid, P. annua has occupied diverse environments from Antarctic area to subtropical regions. To unveil the evolutionary mystery behind P. annua's wide distribution, extensive adaptability and phenotypic plasticity needs collaboration from multiple research scopes from ecology and plant physiology to population genetics and molecular biology. However, the lack of omic data and reference has greatly hampered the study. This is the first comprehensive transcriptome study on Poa species. Total RNA was extracted from P. annua and its two proposed diploid parents, P. supina Schrad and P. infirma Kunth, and sequenced in Illumina Hiseq2000. Optimized, nonredundant transcriptome references were generated for each species using four de novo assemblers (Trinity, Velvet, SOAPdenovo, and CLC Genomics Workbench) and a redundancy-reducing pipeline (CD-HIT-EST and EvidentialGene tr2aacds). Using the constructed transcriptomes together with sequencing reads, we found high similarity in nucleotide sequences and homeologous polymorphisms between P. annua and the two proposed parents. Comparison of chloroplast and mitochondrion genes further confirmed P. infirma as the maternal parent. Less nucleotide percentage differences were observed between P. infirma and infirma homeologs than between P. supina and supina homeologs, indicating a higher nucleotide substitution rates in supina homeologs than in infirma homeologs. Gene ontology (GO) enrichment analysis suggested the more compatible cytoplasmic environment and cellular apparatus for infirma homeologs as the major cause for this phenomenon.

show abstract

“…The Pro197 and Ala205 mutations have been known to endow resistance to a number of sulfonylurea herbicides in annual bluegrass; however, the diversity of cross‐resistance endowed by the Trp574 mutation contributes to its evolutionary importance to the weed (Bernasconi et al., 1995; Brosnan et al., 2016; Guttieri et al., 1992; McElroy et al., 2013). It is unknown why there were difficulties in amplifying the 5′ end of ALS in P. annua , as previously published methods were utilized (S. Chen et al., 2015). The only solution now is to conduct transcriptome sequencing; however, this would be prohibitively expensive for the remaining populations.…”

Section: Discussionmentioning

confidence: 99%

Survey of target site resistance alleles conferring resistance in Poa annua

et al. 2023

View full text Add to dashboard Cite

Poa annua L. (annual bluegrass) is a common weed in turfgrass and has been confirmed resistant to twelve different herbicide sites of action, with various combinations of multiple‐herbicide resistance having been identified. In an effort to quantify the extent of herbicide resistant P. annua, the ResistPoa Project (resistpoa.org) surveyed 1349 P. annua populations for resistance to nine sites of action and one plant growth retardant. Herein we report results from sequencing of known target site mutations found in EPSPS, ALS, psbA, and 𝛼‐tubulin genes. Populations were sequenced using either capillary or amplicon sequencing (AmpSeq), depending on the complexity of the gene, and were analyzed for target‐site resistance. After additional resistance screening, a total of 389 suspected resistant populations were sequenced—131 for ALS, 83 for EPSPS, 93 for psbA, and 82 for 𝛼‐tubulin. From the resistant populations, 64 displayed resistance to multiple sites of action. After sequencing, it was determined that target‐site resistance was the common form of resistance for all sites of action outside of psbA with 65.6% of ALS populations, 73.5% of EPSPS, 39.8% of psbA, 91.5% of 𝛼‐tubulin having presented a target‐site mutation.This article is protected by copyright. All rights reserved

show abstract

Utilizing next-generation sequencing to study homeologous polymorphisms and herbicide-resistance-endowing mutations inPoa annuaacetolactate synthase genes

Cited by 8 publications

References 41 publications

A new amino acid substitution (Ala-205-Phe) in acetolactate synthase (ALS) confers broad spectrum resistance to ALS-inhibiting herbicides

A new amino acid substitution (Ala-205-Phe) in acetolactate synthase (ALS) confers broad spectrum resistance to ALS-inhibiting herbicides

Transcriptome Assembly and Comparison of an Allotetraploid Weed Species, Annual Bluegrass, with its Two Diploid Progenitor Species, Poa supina Schrad and Poa infirma Kunth

Survey of target site resistance alleles conferring resistance in Poa annua

Contact Info

Product

Resources

About