Abstract
We report the first plastome sequence of giant ragweed (Ambrosia trifida); with this new genome information, we assessed the phylogeny of Asteraceae and the transcriptional profiling against glyphosate resistance in giant ragweed. Assembly and genic features show a normal angiosperm quadripartite plastome structure with no signatures of deviation in gene directionality. Comparative analysis revealed large inversions across the plastome of giant ragweed and the previously sequenced members of the plant family. Asteraceae plastid genomes contain two inversions of 22.8 and 3.3 kb; the former is located between trnS-GCU and trnG-UCC genes, and the latter between trnE-UUC and trnT-GGU genes. The plastid genome sequences of A. trifida and the related species, Ambrosia artemisiifolia, are identical in gene content and arrangement, but they differ in length. The phylogeny is well-resolved and congruent with previous hypotheses about the phylogenetic relationship of Asteraceae. Transcriptomic analysis revealed divergence in the relative expressions at the exonic and intronic levels, providing hints toward the ecological adaptation of the genus. Giant ragweed shows various levels of glyphosate resistance, with introns displaying higher expression patterns at resistant time points after the assumed herbicide treatment.
| Original language | English |
|---|---|
| Article number | 218 |
| Journal | Frontiers in plant science |
| Volume | 10 |
| Number of pages | 18 |
| ISSN | 1664-462X |
| DOIs | |
| Publication status | Published - 28 Feb 2019 |
| MoE publication type | A1 Journal article-refereed |
Fields of Science
- ARTEMISIIFOLIA L.
- Ambrosia trifida
- COMMON RAGWEED
- COMPLETE CHLOROPLAST GENOME
- EARLY EVOLUTION
- GENETIC DIVERSITY
- GLYPHOSATE RESISTANCE
- HERBICIDE RESISTANCE
- INVERSION VARIATION
- NATIVE RANGE
- RECURRENT SELECTION
- chloroplast genome
- genome skimming
- glyphosate
- herbicide resistance
- invasive plants
- noxious weeds
- ragweed
- 1181 Ecology, evolutionary biology
- 1184 Genetics, developmental biology, physiology
- 1183 Plant biology, microbiology, virology
Cite this
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Sequencing the plastid genome of giant ragweed (Ambrosia trifida, Asteraceae) from a herbarium specimen. / Sablok, Gaurav; Amiryousefi, Ali; He, Xiaolan; Hyvönen, Jaakko Tapani; Poczai, Péter.
In: Frontiers in plant science, Vol. 10, 218, 28.02.2019.Research output: Contribution to journal › Article › Scientific › peer-review
TY - JOUR
T1 - Sequencing the plastid genome of giant ragweed (Ambrosia trifida, Asteraceae) from a herbarium specimen
AU - Sablok, Gaurav
AU - Amiryousefi, Ali
AU - He, Xiaolan
AU - Hyvönen, Jaakko Tapani
AU - Poczai, Péter
PY - 2019/2/28
Y1 - 2019/2/28
N2 - We report the first plastome sequence of giant ragweed (Ambrosia trifida); with this new genome information, we assessed the phylogeny of Asteraceae and the transcriptional profiling against glyphosate resistance in giant ragweed. Assembly and genic features show a normal angiosperm quadripartite plastome structure with no signatures of deviation in gene directionality. Comparative analysis revealed large inversions across the plastome of giant ragweed and the previously sequenced members of the plant family. Asteraceae plastid genomes contain two inversions of 22.8 and 3.3 kb; the former is located between trnS-GCU and trnG-UCC genes, and the latter between trnE-UUC and trnT-GGU genes. The plastid genome sequences of A. trifida and the related species, Ambrosia artemisiifolia, are identical in gene content and arrangement, but they differ in length. The phylogeny is well-resolved and congruent with previous hypotheses about the phylogenetic relationship of Asteraceae. Transcriptomic analysis revealed divergence in the relative expressions at the exonic and intronic levels, providing hints toward the ecological adaptation of the genus. Giant ragweed shows various levels of glyphosate resistance, with introns displaying higher expression patterns at resistant time points after the assumed herbicide treatment.
AB - We report the first plastome sequence of giant ragweed (Ambrosia trifida); with this new genome information, we assessed the phylogeny of Asteraceae and the transcriptional profiling against glyphosate resistance in giant ragweed. Assembly and genic features show a normal angiosperm quadripartite plastome structure with no signatures of deviation in gene directionality. Comparative analysis revealed large inversions across the plastome of giant ragweed and the previously sequenced members of the plant family. Asteraceae plastid genomes contain two inversions of 22.8 and 3.3 kb; the former is located between trnS-GCU and trnG-UCC genes, and the latter between trnE-UUC and trnT-GGU genes. The plastid genome sequences of A. trifida and the related species, Ambrosia artemisiifolia, are identical in gene content and arrangement, but they differ in length. The phylogeny is well-resolved and congruent with previous hypotheses about the phylogenetic relationship of Asteraceae. Transcriptomic analysis revealed divergence in the relative expressions at the exonic and intronic levels, providing hints toward the ecological adaptation of the genus. Giant ragweed shows various levels of glyphosate resistance, with introns displaying higher expression patterns at resistant time points after the assumed herbicide treatment.
KW - ARTEMISIIFOLIA L.
KW - Ambrosia trifida
KW - COMMON RAGWEED
KW - COMPLETE CHLOROPLAST GENOME
KW - EARLY EVOLUTION
KW - GENETIC DIVERSITY
KW - GLYPHOSATE RESISTANCE
KW - HERBICIDE RESISTANCE
KW - INVERSION VARIATION
KW - NATIVE RANGE
KW - RECURRENT SELECTION
KW - chloroplast genome
KW - genome skimming
KW - glyphosate
KW - herbicide resistance
KW - invasive plants
KW - noxious weeds
KW - ragweed
KW - 1181 Ecology, evolutionary biology
KW - 1184 Genetics, developmental biology, physiology
KW - 1183 Plant biology, microbiology, virology
U2 - 10.3389/fpls.2019.00218
DO - 10.3389/fpls.2019.00218
M3 - Article
VL - 10
JO - Frontiers in plant science
JF - Frontiers in plant science
SN - 1664-462X
M1 - 218
ER -